rowid,run.accession,experiment.accession,sample.accession,study.accession,bioproject,study.title,study.alias,study.type,study.abstract,study.attributes,study.PMIDs,sample.description,sample.title,sample.alias,sample.centername,sample.attributes,GEOsample.title,GEOsample.dataprocessing,GEOsample.source,GEOsample.treatmentprotocol,GEOsample.extractprotocol,GEOsample.growthprotocol,GEOsample.characteristics,GEOsample.accession,experiment.title,experiment.alias,experiment.library_name,experiment.design_description,experiment.library_construction_protocol,experiment.attributes,experiment.library_strategy,experiment.library_source,experiment.library_selection,experiment.library_layout,experiment.platform,experiment.instrument_model,experiment.spot_descriptor,experiment.study_ref,run.title,run.attributes,run.filename,run.semantic_name,run.total_bases,run.total_spots,run.alias,run.read_lengths,run.base_counts,run.r1_length,run.r2_length,run.r3_length,run.r4_length,run.Acount,run.Ccount,run.Gcount,run.Tcount,run.Ncount,run.experiment,run.pool_member,submission.accession,submission.srasource,submission.bioprojectsource,seqdetective.n_mates,seqdetective.mapping_rate.mate1,seqdetective.mapping_rate.mate2,seqdetective.nofeature_rate.mate1,seqdetective.nofeature_rate.mate2,seqdetective.sparsity.mate1,seqdetective.sparsity.mate2,seqdetective.pos_strand_rate.mate1,seqdetective.pos_strand_rate.mate2,seqdetective.readlen.mate1,seqdetective.readlen.mate2,seqdetective.judgement.mate1,seqdetective.judgement.mate2,seqdetective.judgement.reason,platform_family,instrument_generation,read_bias,selection_class,prep_kit,sc_or_bulk,tech_class,technology,tech_variant,submission.bioprojectsource.country,earliest_date,devstage_curation,devstage_curation_coarse,tissue_curation,tissue_curation_coarse
55747,SRR10753218,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read2_indexN707-S517=Aug1_Cell_49.fastq.gz run1696_lane2_read1_indexN707-S517=Aug1_Cell_49.fastq.gz,fastq fastq,283120950.0,1887473.0,GSM4230287 r1,0:75 1:75,A:78921390;C:62364350;G:62670695;T:79125765;N:38750,75,75,,,78921390,62364350,62670695,79125765,38750,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90632,0.92036,0.16158,0.16744,0.93332,0.93389,0.4857,0.48751,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55748,SRR10753219,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read2_indexN709-S502=Aug1_Cell_58.fastq.gz run1696_lane2_read1_indexN709-S502=Aug1_Cell_58.fastq.gz,fastq fastq,245846550.0,1638977.0,GSM4230287 r10,0:75 1:75,A:67896939;C:54764431;G:55135813;T:68016031;N:33336,75,75,,,67896939,54764431,55135813,68016031,33336,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90267,0.90773,0.18676,0.18997,0.92983,0.92971,0.49203,0.49454,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55749,SRR10753220,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read2_indexN710-S503=Aug1_Cell_59.fastq.gz run1696_lane2_read1_indexN710-S503=Aug1_Cell_59.fastq.gz,fastq fastq,254226450.0,1694843.0,GSM4230287 r11,0:75 1:75,A:72181308;C:54619189;G:54984718;T:72405980;N:35255,75,75,,,72181308,54619189,54984718,72405980,35255,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.89184,0.89943,0.33071,0.3348,0.90538,0.90514,0.54519,0.54232,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55750,SRR10753221,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN711-S504=Aug1_Cell_60.fastq.gz run1696_lane2_read2_indexN711-S504=Aug1_Cell_60.fastq.gz,fastq fastq,272723400.0,1818156.0,GSM4230287 r12,0:75 1:75,A:75891977;C:60178887;G:60639000;T:75975500;N:38036,75,75,,,75891977,60178887,60639000,75975500,38036,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.91617,0.92262,0.19662,0.20134,0.93072,0.9307,0.43264,0.43459,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55751,SRR10753222,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read2_indexN712-S505=Aug1_Cell_61.fastq.gz run1696_lane2_read1_indexN712-S505=Aug1_Cell_61.fastq.gz,fastq fastq,328643250.0,2190955.0,GSM4230287 r13,0:75 1:75,A:91428860;C:72391345;G:72874053;T:91904041;N:44951,75,75,,,91428860,72391345,72874053,91904041,44951,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90728,0.91292,0.20245,0.20556,0.91701,0.91664,0.47925,0.47785,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55752,SRR10753223,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN701-S506=Aug1_Cell_62.fastq.gz run1696_lane2_read2_indexN701-S506=Aug1_Cell_62.fastq.gz,fastq fastq,393051600.0,2620344.0,GSM4230287 r14,0:75 1:75,A:107520133;C:88489033;G:89202131;T:107788164;N:52139,75,75,,,107520133,88489033,89202131,107788164,52139,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.91538,0.92003,0.14754,0.14967,0.89438,0.89572,0.48906,0.46829,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55753,SRR10753224,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN702-S507=Aug1_Cell_63.fastq.gz run1696_lane2_read2_indexN702-S507=Aug1_Cell_63.fastq.gz,fastq fastq,266633850.0,1777559.0,GSM4230287 r15,0:75 1:75,A:75310904;C:57522159;G:58016352;T:75748192;N:36243,75,75,,,75310904,57522159,58016352,75748192,36243,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.8963,0.91004,0.26603,0.27276,0.92064,0.91993,0.49301,0.49362,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55754,SRR10753225,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN703-S508=Aug1_Cell_64.fastq.gz run1696_lane2_read2_indexN703-S508=Aug1_Cell_64.fastq.gz,fastq fastq,320260050.0,2135067.0,GSM4230287 r16,0:75 1:75,A:88326766;C:70952312;G:71719762;T:89217755;N:43455,75,75,,,88326766,70952312,71719762,89217755,43455,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90631,0.91303,0.17305,0.1758,0.91226,0.91194,0.4751,0.47508,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55755,SRR10753226,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read2_indexN709-S517=Aug1_Cell_65.fastq.gz run1696_lane2_read1_indexN709-S517=Aug1_Cell_65.fastq.gz,fastq fastq,237092850.0,1580619.0,GSM4230287 r17,0:75 1:75,A:65593919;C:52797142;G:53078356;T:65591887;N:31546,75,75,,,65593919,52797142,53078356,65591887,31546,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.9084,0.91253,0.16047,0.16296,0.91291,0.91232,0.47821,0.48265,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55756,SRR10753227,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN710-S502=Aug1_Cell_66.fastq.gz run1696_lane2_read2_indexN710-S502=Aug1_Cell_66.fastq.gz,fastq fastq,203466600.0,1356444.0,GSM4230287 r18,0:75 1:75,A:57338640;C:43614133;G:44244871;T:58241187;N:27769,75,75,,,57338640,43614133,44244871,58241187,27769,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.88694,0.89395,0.35775,0.36017,0.93371,0.93428,0.64977,0.64812,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55757,SRR10753228,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN711-S503=Aug1_Cell_67.fastq.gz run1696_lane2_read2_indexN711-S503=Aug1_Cell_67.fastq.gz,fastq fastq,382760100.0,2551734.0,GSM4230287 r19,0:75 1:75,A:104074844;C:86846190;G:87465046;T:104321801;N:52219,75,75,,,104074844,86846190,87465046,104321801,52219,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.92294,0.92788,0.14352,0.14599,0.91845,0.91782,0.48227,0.48103,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55758,SRR10753229,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN708-S502=Aug1_Cell_50.fastq.gz run1696_lane2_read2_indexN708-S502=Aug1_Cell_50.fastq.gz,fastq fastq,267098700.0,1780658.0,GSM4230287 r2,0:75 1:75,A:74382570;C:58775515;G:59120917;T:74783242;N:36456,75,75,,,74382570,58775515,59120917,74783242,36456,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90724,0.91983,0.2402,0.24535,0.92547,0.92533,0.45641,0.4586,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55759,SRR10753230,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN712-S504=Aug1_Cell_68.fastq.gz run1696_lane2_read2_indexN712-S504=Aug1_Cell_68.fastq.gz,fastq fastq,318756750.0,2125045.0,GSM4230287 r20,0:75 1:75,A:87025537;C:72058246;G:72667582;T:86962614;N:42771,75,75,,,87025537,72058246,72667582,86962614,42771,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.91149,0.91879,0.14134,0.14484,0.9181,0.91839,0.48713,0.48686,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55760,SRR10753231,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN701-S505=Aug1_Cell_69.fastq.gz run1696_lane2_read2_indexN701-S505=Aug1_Cell_69.fastq.gz,fastq fastq,284858550.0,1899057.0,GSM4230287 r21,0:75 1:75,A:78978323;C:63093139;G:63404944;T:79343904;N:38240,75,75,,,78978323,63093139,63404944,79343904,38240,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.91426,0.92025,0.1863,0.18952,0.92855,0.92849,0.50311,0.50162,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55761,SRR10753232,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN702-S506=Aug1_Cell_70.fastq.gz run1696_lane2_read2_indexN702-S506=Aug1_Cell_70.fastq.gz,fastq fastq,284898300.0,1899322.0,GSM4230287 r22,0:75 1:75,A:78397302;C:63504322;G:64181815;T:78775032;N:39829,75,75,,,78397302,63504322,64181815,78775032,39829,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90463,0.9098,0.13564,0.137,0.90382,0.90461,0.48397,0.4914,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55762,SRR10753233,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN703-S507=Aug1_Cell_71.fastq.gz run1696_lane2_read2_indexN703-S507=Aug1_Cell_71.fastq.gz,fastq fastq,320753850.0,2138359.0,GSM4230287 r23,0:75 1:75,A:88975252;C:70589715;G:71455216;T:89691991;N:41676,75,75,,,88975252,70589715,71455216,89691991,41676,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.87801,0.88372,0.22781,0.23132,0.9036,0.90408,0.47968,0.48892,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55763,SRR10753234,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN704-S508=Aug1_Cell_72.fastq.gz run1696_lane2_read2_indexN704-S508=Aug1_Cell_72.fastq.gz,fastq fastq,299361600.0,1995744.0,GSM4230287 r24,0:75 1:75,A:79430814;C:70183806;G:70603054;T:79102903;N:41023,75,75,,,79430814,70183806,70603054,79102903,41023,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90697,0.91051,0.13467,0.13564,0.92669,0.92691,0.44358,0.43646,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55764,SRR10753235,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN710-S517=Aug1_Cell_73.fastq.gz run1696_lane2_read2_indexN710-S517=Aug1_Cell_73.fastq.gz,fastq fastq,177953400.0,1186356.0,GSM4230287 r25,0:75 1:75,A:50000069;C:38723482;G:38933711;T:50273254;N:22884,75,75,,,50000069,38723482,38933711,50273254,22884,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90193,0.91597,0.18328,0.18867,0.95063,0.95028,0.47314,0.47044,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55765,SRR10753236,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN711-S502=Aug1_Cell_74.fastq.gz run1696_lane2_read2_indexN711-S502=Aug1_Cell_74.fastq.gz,fastq fastq,279180300.0,1861202.0,GSM4230287 r26,0:75 1:75,A:78643117;C:60355928;G:60826366;T:79317071;N:37818,75,75,,,78643117,60355928,60826366,79317071,37818,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.9052,0.90984,0.27142,0.27375,0.96867,0.96865,0.51907,0.52285,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55766,SRR10753237,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN712-S503=Aug1_Cell_75.fastq.gz run1696_lane2_read2_indexN712-S503=Aug1_Cell_75.fastq.gz,fastq fastq,349436850.0,2329579.0,GSM4230287 r27,0:75 1:75,A:97251265;C:76806628;G:77656677;T:97675062;N:47218,75,75,,,97251265,76806628,77656677,97675062,47218,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90399,0.90953,0.22592,0.22897,0.90962,0.91015,0.48568,0.48353,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55767,SRR10753238,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN701-S504=Aug1_Cell_76.fastq.gz run1696_lane2_read2_indexN701-S504=Aug1_Cell_76.fastq.gz,fastq fastq,287349300.0,1915662.0,GSM4230287 r28,0:75 1:75,A:79830728;C:63683589;G:64040532;T:79755658;N:38793,75,75,,,79830728,63683589,64040532,79755658,38793,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.91249,0.91836,0.18353,0.18679,0.91942,0.91918,0.48879,0.48925,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55768,SRR10753239,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN702-S505=Aug1_Cell_77.fastq.gz run1696_lane2_read2_indexN702-S505=Aug1_Cell_77.fastq.gz,fastq fastq,288709800.0,1924732.0,GSM4230287 r29,0:75 1:75,A:79556851;C:64127745;G:64891546;T:80093515;N:40143,75,75,,,79556851,64127745,64891546,80093515,40143,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90821,0.91323,0.185,0.18708,0.89018,0.89057,0.48437,0.48334,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55769,SRR10753240,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN709-S503=Aug1_Cell_51.fastq.gz run1696_lane2_read2_indexN709-S503=Aug1_Cell_51.fastq.gz,fastq fastq,241206600.0,1608044.0,GSM4230287 r3,0:75 1:75,A:66846250;C:53388095;G:53773714;T:67165505;N:33036,75,75,,,66846250,53388095,53773714,67165505,33036,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90761,0.91183,0.20482,0.2069,0.91437,0.91435,0.50196,0.50907,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55770,SRR10753241,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN703-S506=Aug1_Cell_78.fastq.gz run1696_lane2_read2_indexN703-S506=Aug1_Cell_78.fastq.gz,fastq fastq,350680950.0,2337873.0,GSM4230287 r30,0:75 1:75,A:97180433;C:77760723;G:78449256;T:97242648;N:47890,75,75,,,97180433,77760723,78449256,97242648,47890,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.91178,0.9175,0.18486,0.1874,0.91463,0.91612,0.51946,0.52606,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55771,SRR10753242,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN704-S507=Aug1_Cell_79.fastq.gz run1696_lane2_read2_indexN704-S507=Aug1_Cell_79.fastq.gz,fastq fastq,301610700.0,2010738.0,GSM4230287 r31,0:75 1:75,A:83008152;C:67488146;G:68027086;T:83048256;N:39060,75,75,,,83008152,67488146,68027086,83048256,39060,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90738,0.92127,0.1374,0.14115,0.90281,0.90323,0.49906,0.5053,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55772,SRR10753243,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN705-S508=Aug1_Cell_80.fastq.gz run1696_lane2_read2_indexN705-S508=Aug1_Cell_80.fastq.gz,fastq fastq,376354800.0,2509032.0,GSM4230287 r32,0:75 1:75,A:103364840;C:83901867;G:84865220;T:104170582;N:52291,75,75,,,103364840,83901867,84865220,104170582,52291,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.9055,0.91077,0.15298,0.1558,0.89116,0.89167,0.48355,0.48618,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55773,SRR10753244,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN711-S517=Aug1_Cell_81.fastq.gz run1696_lane2_read2_indexN711-S517=Aug1_Cell_81.fastq.gz,fastq fastq,299770350.0,1998469.0,GSM4230287 r33,0:75 1:75,A:82289754;C:67187388;G:67586885;T:82664262;N:42061,75,75,,,82289754,67187388,67586885,82664262,42061,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.91515,0.92029,0.16415,0.16637,0.93576,0.9357,0.45125,0.44424,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55774,SRR10753245,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN712-S502=Aug1_Cell_82.fastq.gz run1696_lane2_read2_indexN712-S502=Aug1_Cell_82.fastq.gz,fastq fastq,324078300.0,2160522.0,GSM4230287 r34,0:75 1:75,A:88656173;C:73899158;G:74013418;T:87465839;N:43712,75,75,,,88656173,73899158,74013418,87465839,43712,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.91408,0.91846,0.24394,0.246,0.96112,0.961,0.4816,0.59275,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55775,SRR10753246,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN701-S503=Aug1_Cell_83.fastq.gz run1696_lane2_read2_indexN701-S503=Aug1_Cell_83.fastq.gz,fastq fastq,217032750.0,1446885.0,GSM4230287 r35,0:75 1:75,A:59534071;C:48070176;G:49062629;T:60336044;N:29830,75,75,,,59534071,48070176,49062629,60336044,29830,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.87055,0.87748,0.24417,0.24556,0.93943,0.93935,0.7874,0.78699,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55776,SRR10753247,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN702-S504=Aug1_Cell_84.fastq.gz run1696_lane2_read2_indexN702-S504=Aug1_Cell_84.fastq.gz,fastq fastq,288801450.0,1925343.0,GSM4230287 r36,0:75 1:75,A:80110712;C:64112359;G:64456856;T:80083340;N:38183,75,75,,,80110712,64112359,64456856,80083340,38183,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.91114,0.91718,0.16956,0.17377,0.91411,0.91429,0.50676,0.50753,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55777,SRR10753248,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN703-S505=Aug1_Cell_85.fastq.gz run1696_lane2_read2_indexN703-S505=Aug1_Cell_85.fastq.gz,fastq fastq,296308500.0,1975390.0,GSM4230287 r37,0:75 1:75,A:82776201;C:64434147;G:65242392;T:83815687;N:40073,75,75,,,82776201,64434147,65242392,83815687,40073,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.89013,0.89653,0.18828,0.19101,0.88787,0.88785,0.49705,0.505,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55778,SRR10753249,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN704-S506=Aug1_Cell_86.fastq.gz run1696_lane2_read2_indexN704-S506=Aug1_Cell_86.fastq.gz,fastq fastq,329897850.0,2199319.0,GSM4230287 r38,0:75 1:75,A:91441750;C:72960353;G:73464989;T:91986497;N:44261,75,75,,,91441750,72960353,73464989,91986497,44261,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.91815,0.92369,0.18544,0.18829,0.94527,0.94552,0.4292,0.43583,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55779,SRR10753250,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN705-S507=Aug1_Cell_87.fastq.gz run1696_lane2_read2_indexN705-S507=Aug1_Cell_87.fastq.gz,fastq fastq,322963500.0,2153090.0,GSM4230287 r39,0:75 1:75,A:88789292;C:72352695;G:72843334;T:88935120;N:43059,75,75,,,88789292,72352695,72843334,88935120,43059,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.92095,0.92789,0.14339,0.14586,0.94308,0.94359,0.49931,0.4992,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55780,SRR10753251,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN710-S504=Aug1_Cell_52.fastq.gz run1696_lane2_read2_indexN710-S504=Aug1_Cell_52.fastq.gz,fastq fastq,265346250.0,1768975.0,GSM4230287 r4,0:75 1:75,A:74074058;C:58293208;G:58627997;T:74316626;N:34361,75,75,,,74074058,58293208,58627997,74316626,34361,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90624,0.9193,0.21417,0.22055,0.90948,0.90938,0.49135,0.48435,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55781,SRR10753252,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN706-S508=Aug1_Cell_88.fastq.gz run1696_lane2_read2_indexN706-S508=Aug1_Cell_88.fastq.gz,fastq fastq,346084350.0,2307229.0,GSM4230287 r40,0:75 1:75,A:95282196;C:77387933;G:77889452;T:95477032;N:47737,75,75,,,95282196,77387933,77889452,95477032,47737,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.91441,0.91887,0.14069,0.14283,0.91589,0.91589,0.48567,0.48486,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55782,SRR10753253,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN712-S517=Aug1_Cell_89.fastq.gz run1696_lane2_read2_indexN712-S517=Aug1_Cell_89.fastq.gz,fastq fastq,299214150.0,1994761.0,GSM4230287 r41,0:75 1:75,A:84760328;C:64330889;G:64713377;T:85368909;N:40647,75,75,,,84760328,64330889,64713377,85368909,40647,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.89925,0.9046,0.23324,0.23787,0.93754,0.93787,0.49809,0.49658,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55783,SRR10753254,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN701-S502=Aug1_Cell_90.fastq.gz run1696_lane2_read2_indexN701-S502=Aug1_Cell_90.fastq.gz,fastq fastq,296379750.0,1975865.0,GSM4230287 r42,0:75 1:75,A:84724008;C:64477005;G:63594204;T:83543595;N:40938,75,75,,,84724008,64477005,63594204,83543595,40938,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.91759,0.92318,0.59672,0.60102,0.9489,0.94884,0.51902,0.51562,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55784,SRR10753255,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN702-S503=Aug1_Cell_91.fastq.gz run1696_lane2_read2_indexN702-S503=Aug1_Cell_91.fastq.gz,fastq fastq,381532350.0,2543549.0,GSM4230287 r43,0:75 1:75,A:104927348;C:85478286;G:86116958;T:104958903;N:50855,75,75,,,104927348,85478286,86116958,104958903,50855,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90434,0.90948,0.21281,0.2161,0.90609,0.90652,0.48698,0.48654,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55785,SRR10753256,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN703-S504=Aug1_Cell_92.fastq.gz run1696_lane2_read2_indexN703-S504=Aug1_Cell_92.fastq.gz,fastq fastq,277685850.0,1851239.0,GSM4230287 r44,0:75 1:75,A:77163713;C:61411043;G:61889515;T:77184100;N:37479,75,75,,,77163713,61411043,61889515,77184100,37479,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.89942,0.90575,0.19557,0.19955,0.92514,0.92659,0.50956,0.51364,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55786,SRR10753257,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN704-S505=Aug1_Cell_93.fastq.gz run1696_lane2_read2_indexN704-S505=Aug1_Cell_93.fastq.gz,fastq fastq,287073450.0,1913823.0,GSM4230287 r45,0:75 1:75,A:80239990;C:62929136;G:63425774;T:80441246;N:37304,75,75,,,80239990,62929136,63425774,80441246,37304,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90019,0.91389,0.16561,0.16949,0.90946,0.9092,0.44449,0.49777,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55787,SRR10753258,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN705-S506=Aug1_Cell_94.fastq.gz run1696_lane2_read2_indexN705-S506=Aug1_Cell_94.fastq.gz,fastq fastq,285636450.0,1904243.0,GSM4230287 r46,0:75 1:75,A:80380364;C:61727196;G:62532553;T:80957412;N:38925,75,75,,,80380364,61727196,62532553,80957412,38925,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.88701,0.89489,0.28158,0.28356,0.9391,0.94026,0.62885,0.62711,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55788,SRR10753259,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN706-S507=Aug1_Cell_95.fastq.gz run1696_lane2_read2_indexN706-S507=Aug1_Cell_95.fastq.gz,fastq fastq,319043700.0,2126958.0,GSM4230287 r47,0:75 1:75,A:88834179;C:69902391;G:70666753;T:89598537;N:41840,75,75,,,88834179,69902391,70666753,89598537,41840,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90283,0.90836,0.21154,0.21543,0.91082,0.91143,0.49488,0.48046,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55789,SRR10753260,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN707-S508=Aug1_Cell_96.fastq.gz run1696_lane2_read2_indexN707-S508=Aug1_Cell_96.fastq.gz,fastq fastq,23619300.0,157462.0,GSM4230287 r48,0:75 1:75,A:6648282;C:5444230;G:4975645;T:6548172;N:2971,75,75,,,6648282,5444230,4975645,6548172,2971,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.72054,0.86233,0.11482,0.14219,0.95556,0.95627,0.46808,0.46497,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55790,SRR10753261,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN711-S505=Aug1_Cell_53.fastq.gz run1696_lane2_read2_indexN711-S505=Aug1_Cell_53.fastq.gz,fastq fastq,306382800.0,2042552.0,GSM4230287 r5,0:75 1:75,A:86067136;C:66550597;G:67047629;T:86675235;N:42203,75,75,,,86067136,66550597,67047629,86675235,42203,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90104,0.90602,0.25949,0.26321,0.94073,0.94091,0.51681,0.46212,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55791,SRR10753262,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN712-S506=Aug1_Cell_54.fastq.gz run1696_lane2_read2_indexN712-S506=Aug1_Cell_54.fastq.gz,fastq fastq,351081900.0,2340546.0,GSM4230287 r6,0:75 1:75,A:98081793;C:77038508;G:77373196;T:98539502;N:48901,75,75,,,98081793,77038508,77373196,98539502,48901,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90946,0.91275,0.18599,0.18944,0.91995,0.92064,0.51022,0.51557,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55792,SRR10753263,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN701-S507=Aug1_Cell_55.fastq.gz run1696_lane2_read2_indexN701-S507=Aug1_Cell_55.fastq.gz,fastq fastq,313116300.0,2087442.0,GSM4230287 r7,0:75 1:75,A:88330056;C:67596816;G:68042817;T:89103852;N:42759,75,75,,,88330056,67596816,68042817,89103852,42759,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.89433,0.89911,0.27071,0.27406,0.90234,0.9025,0.49714,0.49217,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55793,SRR10753264,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN702-S508=Aug1_Cell_56.fastq.gz run1696_lane2_read2_indexN702-S508=Aug1_Cell_56.fastq.gz,fastq fastq,337006050.0,2246707.0,GSM4230287 r8,0:75 1:75,A:91946919;C:76067774;G:76661595;T:92284491;N:45271,75,75,,,91946919,76067774,76661595,92284491,45271,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.921,0.92486,0.10214,0.10415,0.89528,0.89591,0.4974,0.48846,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55794,SRR10753265,SRX7427899,SRS5873832,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Aug1 2016 20ss etv2gfp,GSM4230287,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,Aug1 2016 20ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:20 somite stage,GSM4230287,GSM4230287: Aug1 2016 20ss etv2gfp; Danio rerio; RNA Seq,GSM4230287,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230287,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN708-S517=Aug1_Cell_57.fastq.gz run1696_lane2_read2_indexN708-S517=Aug1_Cell_57.fastq.gz,fastq fastq,264639450.0,1764263.0,GSM4230287 r9,0:75 1:75,A:74195564;C:57388120;G:58187904;T:74832787;N:35075,75,75,,,74195564,57388120,58187904,74832787,35075,SRX7427899,SRS5873832,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.89601,0.9097,0.3037,0.31018,0.92133,0.92028,0.52888,0.54457,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55795,SRR10753170,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read2_indexN701-S517=Jul11_Cell_1.fastq.gz run1696_lane2_read1_indexN701-S517=Jul11_Cell_1.fastq.gz,fastq fastq,234610050.0,1564067.0,GSM4230286 r1,0:75 1:75,A:65886611;C:50927760;G:51256089;T:66507455;N:32135,75,75,,,65886611,50927760,51256089,66507455,32135,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90542,0.91089,0.2189,0.22149,0.88373,0.88394,0.4997,0.50524,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55796,SRR10753171,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN703-S502=Jul11_Cell_10.fastq.gz run1696_lane2_read2_indexN703-S502=Jul11_Cell_10.fastq.gz,fastq fastq,229833900.0,1532226.0,GSM4230286 r10,0:75 1:75,A:64620859;C:49968774;G:50168025;T:65045353;N:30889,75,75,,,64620859,49968774,50168025,65045353,30889,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90987,0.91683,0.23924,0.24284,0.93663,0.9373,0.51987,0.51778,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55797,SRR10753172,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN704-S503=Jul11_Cell_11.fastq.gz run1696_lane2_read2_indexN704-S503=Jul11_Cell_11.fastq.gz,fastq fastq,263149800.0,1754332.0,GSM4230286 r11,0:75 1:75,A:73836706;C:57360247;G:57722644;T:74193453;N:36750,75,75,,,73836706,57360247,57722644,74193453,36750,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.89945,0.90639,0.23998,0.24336,0.91133,0.91086,0.51231,0.51605,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55798,SRR10753173,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN705-S504=Jul11_Cell_12.fastq.gz run1696_lane2_read2_indexN705-S504=Jul11_Cell_12.fastq.gz,fastq fastq,244566900.0,1630446.0,GSM4230286 r12,0:75 1:75,A:68319904;C:53659268;G:53938996;T:68614934;N:33798,75,75,,,68319904,53659268,53938996,68614934,33798,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.91004,0.9178,0.25315,0.25664,0.92249,0.92326,0.48563,0.48143,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55799,SRR10753174,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN706-S505=Jul11_Cell_13.fastq.gz run1696_lane2_read2_indexN706-S505=Jul11_Cell_13.fastq.gz,fastq fastq,241816350.0,1612109.0,GSM4230286 r13,0:75 1:75,A:67268594;C:53259507;G:53453143;T:67801071;N:34035,75,75,,,67268594,53259507,53453143,67801071,34035,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90542,0.91154,0.1938,0.19642,0.92486,0.92569,0.5072,0.50859,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55800,SRR10753175,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN707-S506=Jul11_Cell_14.fastq.gz run1696_lane2_read2_indexN707-S506=Jul11_Cell_14.fastq.gz,fastq fastq,310674300.0,2071162.0,GSM4230286 r14,0:75 1:75,A:85680219;C:69325072;G:69483001;T:86144244;N:41764,75,75,,,85680219,69325072,69483001,86144244,41764,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90512,0.91232,0.18685,0.18956,0.92234,0.92218,0.51203,0.50944,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55801,SRR10753176,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN708-S507=Jul11_Cell_15.fastq.gz run1696_lane2_read2_indexN708-S507=Jul11_Cell_15.fastq.gz,fastq fastq,245494500.0,1636630.0,GSM4230286 r15,0:75 1:75,A:68708098;C:53710501;G:54106787;T:68935732;N:33382,75,75,,,68708098,53710501,54106787,68935732,33382,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90285,0.90822,0.20608,0.20968,0.91658,0.91679,0.48453,0.48898,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55802,SRR10753177,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN709-S508=Jul11_Cell_16.fastq.gz run1696_lane2_read2_indexN709-S508=Jul11_Cell_16.fastq.gz,fastq fastq,271221000.0,1808140.0,GSM4230286 r16,0:75 1:75,A:75487866;C:59716126;G:59980018;T:76001099;N:35891,75,75,,,75487866,59716126,59980018,76001099,35891,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.91439,0.91827,0.22378,0.22488,0.91094,0.91098,0.45947,0.46059,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55803,SRR10753178,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN703-S517=Jul11_Cell_17.fastq.gz run1696_lane2_read2_indexN703-S517=Jul11_Cell_17.fastq.gz,fastq fastq,245749650.0,1638331.0,GSM4230286 r17,0:75 1:75,A:69131081;C:53395543;G:53713791;T:69474613;N:34622,75,75,,,69131081,53395543,53713791,69474613,34622,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.89587,0.91024,0.25975,0.26614,0.92776,0.92813,0.51292,0.50379,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55804,SRR10753179,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN704-S502=Jul11_Cell_18.fastq.gz run1696_lane2_read2_indexN704-S502=Jul11_Cell_18.fastq.gz,fastq fastq,278149650.0,1854331.0,GSM4230286 r18,0:75 1:75,A:76409981;C:62370498;G:62741308;T:76589811;N:38052,75,75,,,76409981,62370498,62741308,76589811,38052,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.91432,0.92011,0.0909,0.09223,0.91516,0.91504,0.50915,0.51367,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55805,SRR10753180,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN705-S503=Jul11_Cell_19.fastq.gz run1696_lane2_read2_indexN705-S503=Jul11_Cell_19.fastq.gz,fastq fastq,290396700.0,1935978.0,GSM4230286 r19,0:75 1:75,A:79088001;C:65776138;G:66234495;T:79259307;N:38759,75,75,,,79088001,65776138,66234495,79259307,38759,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.9257,0.93018,0.15935,0.16195,0.91559,0.91561,0.47189,0.47975,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55806,SRR10753181,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN702-S502=Jul11_Cell_2.fastq.gz run1696_lane2_read2_indexN702-S502=Jul11_Cell_2.fastq.gz,fastq fastq,199779150.0,1331861.0,GSM4230286 r2,0:75 1:75,A:55573073;C:44137788;G:44371358;T:55669229;N:27702,75,75,,,55573073,44137788,44371358,55669229,27702,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.9054,0.91064,0.17571,0.17809,0.91979,0.91979,0.51339,0.51495,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55807,SRR10753182,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN706-S504=Jul11_Cell_20.fastq.gz run1696_lane2_read2_indexN706-S504=Jul11_Cell_20.fastq.gz,fastq fastq,98432550.0,656217.0,GSM4230286 r20,0:75 1:75,A:28957084;C:19849684;G:19985734;T:29626805;N:13243,75,75,,,28957084,19849684,19985734,29626805,13243,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.84163,0.8548,0.45261,0.46012,0.96175,0.96244,0.89566,0.88797,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55808,SRR10753183,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN707-S505=Jul11_Cell_21.fastq.gz run1696_lane2_read2_indexN707-S505=Jul11_Cell_21.fastq.gz,fastq fastq,240352350.0,1602349.0,GSM4230286 r21,0:75 1:75,A:68296941;C:52691153;G:52436339;T:66894877;N:33040,75,75,,,68296941,52691153,52436339,66894877,33040,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.91789,0.92502,0.53906,0.54283,0.94949,0.95055,0.52294,0.521,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55809,SRR10753184,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN708-S506=Jul11_Cell_22.fastq.gz run1696_lane2_read2_indexN708-S506=Jul11_Cell_22.fastq.gz,fastq fastq,246827700.0,1645518.0,GSM4230286 r22,0:75 1:75,A:67537552;C:55581780;G:55806146;T:67868782;N:33440,75,75,,,67537552,55581780,55806146,67868782,33440,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.91202,0.92695,0.10399,0.10676,0.9304,0.93042,0.49498,0.50126,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55810,SRR10753185,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN709-S507=Jul11_Cell_23.fastq.gz run1696_lane2_read2_indexN709-S507=Jul11_Cell_23.fastq.gz,fastq fastq,169590450.0,1130603.0,GSM4230286 r23,0:75 1:75,A:47628900;C:36822280;G:36950916;T:48165962;N:22392,75,75,,,47628900,36822280,36950916,48165962,22392,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.89164,0.89851,0.34871,0.35219,0.93407,0.9349,0.50768,0.49949,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55811,SRR10753186,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN710-S508=Jul11_Cell_24.fastq.gz run1696_lane2_read2_indexN710-S508=Jul11_Cell_24.fastq.gz,fastq fastq,305726550.0,2038177.0,GSM4230286 r24,0:75 1:75,A:81533250;C:71041934;G:71418199;T:81693555;N:39612,75,75,,,81533250,71041934,71418199,81693555,39612,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.93226,0.93694,0.10993,0.11159,0.89729,0.89759,0.45219,0.45531,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55812,SRR10753187,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN704-S517=Jul11_Cell_25.fastq.gz run1696_lane2_read2_indexN704-S517=Jul11_Cell_25.fastq.gz,fastq fastq,286256850.0,1908379.0,GSM4230286 r25,0:75 1:75,A:80047739;C:62886333;G:63017723;T:80266939;N:38116,75,75,,,80047739,62886333,63017723,80266939,38116,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90362,0.90979,0.24338,0.24655,0.93316,0.93251,0.49351,0.49478,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55813,SRR10753188,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN705-S502=Jul11_Cell_26.fastq.gz run1696_lane2_read2_indexN705-S502=Jul11_Cell_26.fastq.gz,fastq fastq,306193950.0,2041293.0,GSM4230286 r26,0:75 1:75,A:86358269;C:66156274;G:66649467;T:86988153;N:41787,75,75,,,86358269,66156274,66649467,86988153,41787,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90067,0.90677,0.25859,0.26196,0.90193,0.90177,0.48253,0.48139,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55814,SRR10753189,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN706-S503=Jul11_Cell_27.fastq.gz run1696_lane2_read2_indexN706-S503=Jul11_Cell_27.fastq.gz,fastq fastq,313345650.0,2088971.0,GSM4230286 r27,0:75 1:75,A:82621143;C:73782332;G:74207186;T:82692158;N:42831,75,75,,,82621143,73782332,74207186,82692158,42831,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.92039,0.92528,0.04806,0.04957,0.96262,0.96313,0.50982,0.51915,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55815,SRR10753190,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN707-S504=Jul11_Cell_28.fastq.gz run1696_lane2_read2_indexN707-S504=Jul11_Cell_28.fastq.gz,fastq fastq,290251800.0,1935012.0,GSM4230286 r28,0:75 1:75,A:81001873;C:63853844;G:64184343;T:81173703;N:38037,75,75,,,81001873,63853844,64184343,81173703,38037,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90735,0.91191,0.22917,0.23283,0.89822,0.89913,0.50645,0.50208,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55816,SRR10753191,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN708-S505=Jul11_Cell_29.fastq.gz run1696_lane2_read2_indexN708-S505=Jul11_Cell_29.fastq.gz,fastq fastq,269796600.0,1798644.0,GSM4230286 r29,0:75 1:75,A:74845520;C:59720345;G:60026981;T:75166629;N:37125,75,75,,,74845520,59720345,60026981,75166629,37125,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.8986,0.9055,0.25151,0.25413,0.92622,0.92592,0.51342,0.5192,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55817,SRR10753192,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN703-S503=Jul11_Cell_3.fastq.gz run1696_lane2_read2_indexN703-S503=Jul11_Cell_3.fastq.gz,fastq fastq,276661350.0,1844409.0,GSM4230286 r3,0:75 1:75,A:76019778;C:61876096;G:62360417;T:76368352;N:36707,75,75,,,76019778,61876096,62360417,76368352,36707,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.91319,0.91876,0.16398,0.16607,0.90429,0.90506,0.48848,0.48811,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55818,SRR10753193,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN709-S506=Jul11_Cell_30.fastq.gz run1696_lane2_read2_indexN709-S506=Jul11_Cell_30.fastq.gz,fastq fastq,261668550.0,1744457.0,GSM4230286 r30,0:75 1:75,A:71791262;C:58938302;G:59235753;T:71668176;N:35057,75,75,,,71791262,58938302,59235753,71668176,35057,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.91876,0.9245,0.1575,0.15921,0.92851,0.9292,0.47013,0.46545,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55819,SRR10753194,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN710-S507=Jul11_Cell_31.fastq.gz run1696_lane2_read2_indexN710-S507=Jul11_Cell_31.fastq.gz,fastq fastq,255239700.0,1701598.0,GSM4230286 r31,0:75 1:75,A:67813778;C:59696558;G:59917854;T:67778135;N:33375,75,75,,,67813778,59696558,59917854,67778135,33375,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.89552,0.91108,0.04489,0.04637,0.95112,0.9515,0.45372,0.45598,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55820,SRR10753195,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN711-S508=Jul11_Cell_32.fastq.gz run1696_lane2_read2_indexN711-S508=Jul11_Cell_32.fastq.gz,fastq fastq,279591150.0,1863941.0,GSM4230286 r32,0:75 1:75,A:77184098;C:62287058;G:62715923;T:77365240;N:38831,75,75,,,77184098,62287058,62715923,77365240,38831,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90124,0.90862,0.17316,0.17598,0.92186,0.922,0.47028,0.46696,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55821,SRR10753196,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN705-S517=Jul11_Cell_33.fastq.gz run1696_lane2_read2_indexN705-S517=Jul11_Cell_33.fastq.gz,fastq fastq,297679350.0,1984529.0,GSM4230286 r33,0:75 1:75,A:81908338;C:66248702;G:67048123;T:82433762;N:40425,75,75,,,81908338,66248702,67048123,82433762,40425,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90869,0.91575,0.229,0.23301,0.92277,0.9233,0.50453,0.50635,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55822,SRR10753197,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN706-S502=Jul11_Cell_34.fastq.gz run1696_lane2_read2_indexN706-S502=Jul11_Cell_34.fastq.gz,fastq fastq,272841900.0,1818946.0,GSM4230286 r34,0:75 1:75,A:77037069;C:58741674;G:59336039;T:77689813;N:37305,75,75,,,77037069,58741674,59336039,77689813,37305,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.89543,0.90089,0.26126,0.26467,0.9301,0.93038,0.50919,0.5099,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55823,SRR10753198,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN707-S503=Jul11_Cell_35.fastq.gz run1696_lane2_read2_indexN707-S503=Jul11_Cell_35.fastq.gz,fastq fastq,310282350.0,2068549.0,GSM4230286 r35,0:75 1:75,A:85765859;C:68996693;G:69277107;T:86202149;N:40542,75,75,,,85765859,68996693,69277107,86202149,40542,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.91045,0.91657,0.1709,0.17439,0.94387,0.94351,0.47308,0.45,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55824,SRR10753199,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN708-S504=Jul11_Cell_36.fastq.gz run1696_lane2_read2_indexN708-S504=Jul11_Cell_36.fastq.gz,fastq fastq,283378950.0,1889193.0,GSM4230286 r36,0:75 1:75,A:78951358;C:62596074;G:62824427;T:78970041;N:37050,75,75,,,78951358,62596074,62824427,78970041,37050,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.91007,0.91766,0.21216,0.21655,0.9037,0.90392,0.48958,0.4883,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55825,SRR10753200,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN709-S505=Jul11_Cell_37.fastq.gz run1696_lane2_read2_indexN709-S505=Jul11_Cell_37.fastq.gz,fastq fastq,179160000.0,1194400.0,GSM4230286 r37,0:75 1:75,A:51136454;C:37981592;G:38236085;T:51782634;N:23235,75,75,,,51136454,37981592,38236085,51782634,23235,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.8769,0.885,0.44874,0.4538,0.94945,0.95004,0.62021,0.62468,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55826,SRR10753201,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN710-S506=Jul11_Cell_38.fastq.gz run1696_lane2_read2_indexN710-S506=Jul11_Cell_38.fastq.gz,fastq fastq,311858250.0,2079055.0,GSM4230286 r38,0:75 1:75,A:86431449;C:68924504;G:69145395;T:87315051;N:41851,75,75,,,86431449,68924504,69145395,87315051,41851,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.91591,0.92242,0.19938,0.20224,0.89861,0.89895,0.43154,0.43168,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55827,SRR10753202,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN711-S507=Jul11_Cell_39.fastq.gz run1696_lane2_read2_indexN711-S507=Jul11_Cell_39.fastq.gz,fastq fastq,235537500.0,1570250.0,GSM4230286 r39,0:75 1:75,A:59265051;C:58109782;G:58273394;T:59856564;N:32709,75,75,,,59265051,58109782,58273394,59856564,32709,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.93175,0.93635,0.07867,0.07995,0.92228,0.92222,0.39977,0.41756,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55828,SRR10753203,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN704-S504=Jul11_Cell_4.fastq.gz run1696_lane2_read2_indexN704-S504=Jul11_Cell_4.fastq.gz,fastq fastq,159756750.0,1065045.0,GSM4230286 r4,0:75 1:75,A:45643681;C:33948023;G:34357442;T:45786406;N:21198,75,75,,,45643681,33948023,34357442,45786406,21198,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.8854,0.89525,0.39533,0.39922,0.94012,0.94091,0.7084,0.70054,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55829,SRR10753204,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN712-S508=Jul11_Cell_40.fastq.gz run1696_lane2_read2_indexN712-S508=Jul11_Cell_40.fastq.gz,fastq fastq,318708600.0,2124724.0,GSM4230286 r40,0:75 1:75,A:88034371;C:70915334;G:71324343;T:88391544;N:43008,75,75,,,88034371,70915334,71324343,88391544,43008,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90213,0.90865,0.16807,0.17119,0.92044,0.92044,0.49292,0.48662,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55830,SRR10753205,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN706-S517=Jul11_Cell_41.fastq.gz run1696_lane2_read2_indexN706-S517=Jul11_Cell_41.fastq.gz,fastq fastq,64742250.0,431615.0,GSM4230286 r41,0:75 1:75,A:19162010;C:13188347;G:13079186;T:19304279;N:8428,75,75,,,19162010,13188347,13079186,19304279,8428,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.86293,0.88645,0.06233,0.06822,0.98524,0.98543,0.96293,0.96131,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55831,SRR10753206,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN707-S502=Jul11_Cell_42.fastq.gz run1696_lane2_read2_indexN707-S502=Jul11_Cell_42.fastq.gz,fastq fastq,340004850.0,2266699.0,GSM4230286 r42,0:75 1:75,A:94785012;C:74628442;G:75105911;T:95438928;N:46557,75,75,,,94785012,74628442,75105911,95438928,46557,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90617,0.91117,0.21544,0.21811,0.9063,0.90662,0.50778,0.50471,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55832,SRR10753207,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN708-S503=Jul11_Cell_43.fastq.gz run1696_lane2_read2_indexN708-S503=Jul11_Cell_43.fastq.gz,fastq fastq,250302150.0,1668681.0,GSM4230286 r43,0:75 1:75,A:69754290;C:55109529;G:55383622;T:70020824;N:33885,75,75,,,69754290,55109529,55383622,70020824,33885,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90828,0.92448,0.18617,0.19213,0.93892,0.93937,0.49102,0.48924,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55833,SRR10753208,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN709-S504=Jul11_Cell_44.fastq.gz run1696_lane2_read2_indexN709-S504=Jul11_Cell_44.fastq.gz,fastq fastq,253215900.0,1688106.0,GSM4230286 r44,0:75 1:75,A:70658085;C:55685772;G:55965861;T:70870708;N:35474,75,75,,,70658085,55685772,55965861,70870708,35474,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90487,0.91254,0.25079,0.25577,0.92403,0.92362,0.47079,0.49483,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55834,SRR10753209,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN710-S505=Jul11_Cell_45.fastq.gz run1696_lane2_read2_indexN710-S505=Jul11_Cell_45.fastq.gz,fastq fastq,262578150.0,1750521.0,GSM4230286 r45,0:75 1:75,A:74057956;C:56806574;G:57080259;T:74598570;N:34791,75,75,,,74057956,56806574,57080259,74598570,34791,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.88762,0.89523,0.28348,0.28822,0.91204,0.91246,0.50642,0.50406,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55835,SRR10753210,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN711-S506=Jul11_Cell_46.fastq.gz run1696_lane2_read2_indexN711-S506=Jul11_Cell_46.fastq.gz,fastq fastq,369852900.0,2465686.0,GSM4230286 r46,0:75 1:75,A:102421478;C:82006467;G:82415324;T:102958411;N:51220,75,75,,,102421478,82006467,82415324,102958411,51220,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.92265,0.92724,0.19402,0.19656,0.91169,0.91242,0.51698,0.5176,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55836,SRR10753211,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN712-S507=Jul11_Cell_47.fastq.gz run1696_lane2_read2_indexN712-S507=Jul11_Cell_47.fastq.gz,fastq fastq,393660750.0,2624405.0,GSM4230286 r47,0:75 1:75,A:104142776;C:92120276;G:92936996;T:104407393;N:53309,75,75,,,104142776,92120276,92936996,104407393,53309,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.92999,0.93455,0.10649,0.10839,0.89583,0.89611,0.47102,0.47914,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55837,SRR10753212,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN701-S508=Jul11_Cell_48.fastq.gz run1696_lane2_read2_indexN701-S508=Jul11_Cell_48.fastq.gz,fastq fastq,215559750.0,1437065.0,GSM4230286 r48,0:75 1:75,A:58968191;C:48172643;G:48752512;T:59637965;N:28439,75,75,,,58968191,48172643,48752512,59637965,28439,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90927,0.9187,0.04198,0.04207,0.95775,0.95773,0.58247,0.58095,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55838,SRR10753213,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN705-S505=Jul11_Cell_5.fastq.gz run1696_lane2_read2_indexN705-S505=Jul11_Cell_5.fastq.gz,fastq fastq,200844900.0,1338966.0,GSM4230286 r5,0:75 1:75,A:55970389;C:44178155;G:44466489;T:56204031;N:25836,75,75,,,55970389,44178155,44466489,56204031,25836,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90323,0.91007,0.23913,0.24258,0.93217,0.93273,0.50906,0.51334,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55839,SRR10753214,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN706-S506=Jul11_Cell_6.fastq.gz run1696_lane2_read2_indexN706-S506=Jul11_Cell_6.fastq.gz,fastq fastq,292057800.0,1947052.0,GSM4230286 r6,0:75 1:75,A:78797353;C:67018745;G:67251500;T:78950984;N:39218,75,75,,,78797353,67018745,67251500,78950984,39218,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90496,0.91031,0.12647,0.12818,0.9178,0.91778,0.48877,0.48337,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55840,SRR10753215,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN707-S507=Jul11_Cell_7.fastq.gz run1696_lane2_read2_indexN707-S507=Jul11_Cell_7.fastq.gz,fastq fastq,298295400.0,1988636.0,GSM4230286 r7,0:75 1:75,A:82907313;C:65807376;G:66168594;T:83370005;N:42112,75,75,,,82907313,65807376,66168594,83370005,42112,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.91403,0.91812,0.16973,0.17192,0.89996,0.89986,0.48378,0.48757,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55841,SRR10753216,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN708-S508=Jul11_Cell_8.fastq.gz run1696_lane2_read2_indexN708-S508=Jul11_Cell_8.fastq.gz,fastq fastq,285816150.0,1905441.0,GSM4230286 r8,0:75 1:75,A:78006819;C:64531194;G:64992619;T:78245016;N:40502,75,75,,,78006819,64531194,64992619,78245016,40502,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.90347,0.90934,0.19279,0.19598,0.92145,0.92153,0.49843,0.49957,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
55842,SRR10753217,SRX7427898,SRS5873831,SRP238479,PRJNA597148,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE142484,Transcriptome Analysis,During vertebrate embryogenesis  vascular endothelial cells originate in the lateral plate mesoderm LPM next to the progenitors of skeletal muscle. It is currently not clear what prevents vascular progenitors from responding to the adjacent signals that promote muscle development. An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which Gal4 transcriptional activator has integrated into the etv2 gene locus. Unexpectedly  a cell population with the skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Wnt and FGF signaling promoted the differentiation of these putative multipotent etv2 progenitor cells into skeletal muscle cells. We conclude that etv2 actively represses muscle differentiation in vascular progenitors  thus locking these cells into vascular endothelial fate. We also identified the transcriptional signature of putative multipotent progenitors within the LPM that may give rise to vascular progenitor and skeletal muscle cells. Finally  we demonstrate that arterial progenitors co express multiple arterial and venous markers during early stages of vasculogenesis  suggesting multi potency of early vascular progenitors.These findings will be important in understanding the ontogeny of different mesodermal lineages and will help in designing in vitro differentiation strategies to generate vascular  muscle and other types of progenitors for therapeutic purposes. Overall design: 96 cells 48 cells each,,pubmed:32493965,,Jul11 2016 15 18ss etv2gfp,GSM4230286,,tissue:Vascular Endothelial Cells|cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,Jul11 2016 15 18ss etv2gfp,Alignment with Kallisto/AltAnalyze Iterative clustering and guide gene selection ICGS with cosine similarity and fold cutoff of 6 with a minimum of 5 cells and conservative filtering for cell cycle effects Markerfinder to identify enriched genes in each group Genome build: Zv9 Ensembl release 72,Vascular Endothelial Cells,No treatment,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,Embryos grown in standard E3 medium at 28.5C,cell type:Vascular Endothelial Cells|animal line:Tg 2.3 etv2:GFPzf372|developmental stage:15 18 somite stage,GSM4230286,GSM4230286: Jul11 2016 15 18ss etv2gfp; Danio rerio; RNA Seq,GSM4230286,,1,Embryos were non enzymatically homogenized and filtered to create single cells suspension followed by FACs to isolate GFP+ cells,GEO Accession:GSM4230286,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP238479,,,run1696_lane2_read1_indexN702-S517=Jul11_Cell_9.fastq.gz run1696_lane2_read2_indexN702-S517=Jul11_Cell_9.fastq.gz,fastq fastq,233637300.0,1557582.0,GSM4230286 r9,0:75 1:75,A:63579945;C:52969178;G:53291964;T:63765047;N:31166,75,75,,,63579945,52969178,53291964,63765047,31166,SRX7427898,SRS5873831,SRA1015481,GEO,"Developmental Biology, Cincinnati Children's Hospital Medical Center",2,0.91603,0.92161,0.09627,0.09826,0.90183,0.90236,0.47436,0.48131,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2019-12-21,Segmentation,Embryo,Endothelium,Cardiovascular System
56283,SRR10899959,SRX7568764,SRS6004889,SRP242096,PRJNA601476,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE143750,Transcriptome Analysis,An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which the Gal4 transcriptional activator is integrated into the etv2 gene locus. Unexpectedly  a cell population with a skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Overall design: GFP+ cells FACS sorted from etv2^ci32Gt; UAS:GFP embryos at 20ss were analyzed using 10X single cell RNA seq,,,,10X Etv2 homozygous 20ss,GSM4273675,,tissue:FACS sorted GFP+ endothelial cells|age:20 somite stage|cell type:FACS sorted GFP+ endothelial cells|genotype:Etv2 homozygous,10X Etv2 homozygous 20ss,All processing was performed in 10X Genomics CellRanger v2.0.2 using default parameters Raw basecall files were assembled into fastq files using 'mkfastq' function The 'count' function was used to align Fastq files to zebrafish genome v.9  and to obtain the gene expression matrices Genome build: GRCz10 Supplementary files format and content: mtx matrix files,FACS sorted GFP+ endothelial cells,,Whole zebrafish embryos at 20ss were dissociated into a single cell suspension. GFP+ endothelial cells were sorted by FACS.Single cell suspensions were processed through Chromium 10X to generate single cell cDNA libraries attached to microbeads Microbeads were counted  and amplified by PCR  and the three prime end of the cDNA prepared for sequencing using a modified Nextera XT protocol,,age:20 somite stage|cell type:FACS sorted GFP+ endothelial cells|genotype:Etv2 homozygous,GSM4273675,GSM4273675: 10X Etv2 homozygous 20ss; Danio rerio; RNA Seq,GSM4273675,,1,Whole zebrafish embryos at 20ss were dissociated into a single cell suspension. GFP+ endothelial cells were sorted by FACS.Single cell suspensions were processed through Chromium 10X to generate single cell cDNA libraries attached to microbeads Microbeads were counted  and amplified by PCR  and the three prime end of the cDNA prepared for sequencing using a modified Nextera XT protocol,GEO Accession:GSM4273675,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP242096,,loader:fastq load.py|options:  readTypes=TTB   read1PairFiles=10X Homo S1 L001 I1 001.fastq.gz   read2PairFiles=10X Homo S1 L001 R1 001.fastq.gz   read3PairFiles=10X Homo S1 L001 R2 001.fastq.gz,10X_Homo_S1_L001_R2_001.fastq.gz 10X_Homo_S1_L001_R1_001.fastq.gz 10X_Homo_S1_L001_I1_001.fastq.gz,fastq fastq fastq,14265440280.0,78381540.0,GSM4273675 r1,0:8 1:27 2:147,A:4380181360;C:2963120216;G:3162327779;T:3757758592;N:2052333,8,27,147,,4380181360,2963120216,3162327779,3757758592,2052333,SRX7568764,SRS6004889,SRA1026915,GEO,Cincinnati Children's Hospital,1,0.85534,,0.08164,,0.8504,,0.47433,,147,,B,,usable mapping rate,illumina,hiseq_era,3prime,cdna_unspecified,nextera,sc,single_cell_droplet,10x,,United States,2020-01-15,Segmentation,Embryo,Endothelium,Cardiovascular System
56284,SRR10899960,SRX7568764,SRS6004889,SRP242096,PRJNA601476,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE143750,Transcriptome Analysis,An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which the Gal4 transcriptional activator is integrated into the etv2 gene locus. Unexpectedly  a cell population with a skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Overall design: GFP+ cells FACS sorted from etv2^ci32Gt; UAS:GFP embryos at 20ss were analyzed using 10X single cell RNA seq,,,,10X Etv2 homozygous 20ss,GSM4273675,,tissue:FACS sorted GFP+ endothelial cells|age:20 somite stage|cell type:FACS sorted GFP+ endothelial cells|genotype:Etv2 homozygous,10X Etv2 homozygous 20ss,All processing was performed in 10X Genomics CellRanger v2.0.2 using default parameters Raw basecall files were assembled into fastq files using 'mkfastq' function The 'count' function was used to align Fastq files to zebrafish genome v.9  and to obtain the gene expression matrices Genome build: GRCz10 Supplementary files format and content: mtx matrix files,FACS sorted GFP+ endothelial cells,,Whole zebrafish embryos at 20ss were dissociated into a single cell suspension. GFP+ endothelial cells were sorted by FACS.Single cell suspensions were processed through Chromium 10X to generate single cell cDNA libraries attached to microbeads Microbeads were counted  and amplified by PCR  and the three prime end of the cDNA prepared for sequencing using a modified Nextera XT protocol,,age:20 somite stage|cell type:FACS sorted GFP+ endothelial cells|genotype:Etv2 homozygous,GSM4273675,GSM4273675: 10X Etv2 homozygous 20ss; Danio rerio; RNA Seq,GSM4273675,,1,Whole zebrafish embryos at 20ss were dissociated into a single cell suspension. GFP+ endothelial cells were sorted by FACS.Single cell suspensions were processed through Chromium 10X to generate single cell cDNA libraries attached to microbeads Microbeads were counted  and amplified by PCR  and the three prime end of the cDNA prepared for sequencing using a modified Nextera XT protocol,GEO Accession:GSM4273675,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP242096,,loader:fastq load.py|options:  readTypes=TTB   read1PairFiles=10X Homo S1 L002 I1 001.fastq.gz   read2PairFiles=10X Homo S1 L002 R1 001.fastq.gz   read3PairFiles=10X Homo S1 L002 R2 001.fastq.gz,10X_Homo_S1_L002_R2_001.fastq.gz 10X_Homo_S1_L002_R1_001.fastq.gz 10X_Homo_S1_L002_I1_001.fastq.gz,fastq fastq fastq,14672202090.0,80616495.0,GSM4273675 r2,0:8 1:27 2:147,A:4504330378;C:3047430997;G:3252225360;T:3865730356;N:2484999,8,27,147,,4504330378,3047430997,3252225360,3865730356,2484999,SRX7568764,SRS6004889,SRA1026915,GEO,Cincinnati Children's Hospital,1,0.85397,,0.08065,,0.85362,,0.47925,,147,,B,,usable mapping rate,illumina,hiseq_era,3prime,cdna_unspecified,nextera,sc,single_cell_droplet,10x,,United States,2020-01-15,Segmentation,Embryo,Endothelium,Cardiovascular System
56285,SRR10899957,SRX7568763,SRS6004888,SRP242096,PRJNA601476,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE143750,Transcriptome Analysis,An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which the Gal4 transcriptional activator is integrated into the etv2 gene locus. Unexpectedly  a cell population with a skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Overall design: GFP+ cells FACS sorted from etv2^ci32Gt; UAS:GFP embryos at 20ss were analyzed using 10X single cell RNA seq,,,,10X Etv2 heterozygous 20ss,GSM4273674,,tissue:FACS sorted GFP+ endothelial cells|age:20 somite stage|cell type:FACS sorted GFP+ endothelial cells|genotype:Etv2 heterozygous,10X Etv2 heterozygous 20ss,All processing was performed in 10X Genomics CellRanger v2.0.2 using default parameters Raw basecall files were assembled into fastq files using 'mkfastq' function The 'count' function was used to align Fastq files to zebrafish genome v.9  and to obtain the gene expression matrices Genome build: GRCz10 Supplementary files format and content: mtx matrix files,FACS sorted GFP+ endothelial cells,,Whole zebrafish embryos at 20ss were dissociated into a single cell suspension. GFP+ endothelial cells were sorted by FACS.Single cell suspensions were processed through Chromium 10X to generate single cell cDNA libraries attached to microbeads Microbeads were counted  and amplified by PCR  and the three prime end of the cDNA prepared for sequencing using a modified Nextera XT protocol,,age:20 somite stage|cell type:FACS sorted GFP+ endothelial cells|genotype:Etv2 heterozygous,GSM4273674,GSM4273674: 10X Etv2 heterozygous 20ss; Danio rerio; RNA Seq,GSM4273674,,1,Whole zebrafish embryos at 20ss were dissociated into a single cell suspension. GFP+ endothelial cells were sorted by FACS.Single cell suspensions were processed through Chromium 10X to generate single cell cDNA libraries attached to microbeads Microbeads were counted  and amplified by PCR  and the three prime end of the cDNA prepared for sequencing using a modified Nextera XT protocol,GEO Accession:GSM4273674,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP242096,,loader:fastq load.py|options:  readTypes=TTB   read1PairFiles=10X Het S2 L001 I1 001.fastq.gz   read2PairFiles=10X Het S2 L001 R1 001.fastq.gz   read3PairFiles=10X Het S2 L001 R2 001.fastq.gz,10X_Het_S2_L001_R2_001.fastq.gz 10X_Het_S2_L001_R1_001.fastq.gz 10X_Het_S2_L001_I1_001.fastq.gz,fastq fastq fastq,16028775854.0,88070197.0,GSM4273674 r1,0:8 1:27 2:147,A:4841927214;C:3312520117;G:3546106776;T:4325878552;N:2343195,8,27,147,,4841927214,3312520117,3546106776,4325878552,2343195,SRX7568763,SRS6004888,SRA1026915,GEO,Cincinnati Children's Hospital,1,0.85679,,0.0914,,0.84423,,0.50119,,147,,B,,usable mapping rate,illumina,hiseq_era,3prime,cdna_unspecified,nextera,sc,single_cell_droplet,10x,,United States,2020-01-15,Segmentation,Embryo,Endothelium,Cardiovascular System
56286,SRR10899958,SRX7568763,SRS6004888,SRP242096,PRJNA601476,Single cell transcriptomic analysis of embryonic vasculogenesis identifies the conversion of Etv2 deficient vascular progenitors into skeletal muscle,GSE143750,Transcriptome Analysis,An ETS transcription factor Etv2 functions as an evolutionarily conserved master regulator of vasculogenesis. Here we performed single cell transcriptomic analysis of hematovascular development in wild type and etv2 mutant zebrafish embryos. Distinct transcriptional signatures of different types of hematopoietic and vascular progenitors were identified using an etv2ci32Gt gene trap line  in which the Gal4 transcriptional activator is integrated into the etv2 gene locus. Unexpectedly  a cell population with a skeletal muscle signature was observed in etv2 deficient embryos. We demonstrate that multiple etv2ci32Gt; UAS:GFP cells migrate into the somites  elongate and differentiate as skeletal muscle cells instead of contributing to vasculature in etv2 deficient embryos. Overall design: GFP+ cells FACS sorted from etv2^ci32Gt; UAS:GFP embryos at 20ss were analyzed using 10X single cell RNA seq,,,,10X Etv2 heterozygous 20ss,GSM4273674,,tissue:FACS sorted GFP+ endothelial cells|age:20 somite stage|cell type:FACS sorted GFP+ endothelial cells|genotype:Etv2 heterozygous,10X Etv2 heterozygous 20ss,All processing was performed in 10X Genomics CellRanger v2.0.2 using default parameters Raw basecall files were assembled into fastq files using 'mkfastq' function The 'count' function was used to align Fastq files to zebrafish genome v.9  and to obtain the gene expression matrices Genome build: GRCz10 Supplementary files format and content: mtx matrix files,FACS sorted GFP+ endothelial cells,,Whole zebrafish embryos at 20ss were dissociated into a single cell suspension. GFP+ endothelial cells were sorted by FACS.Single cell suspensions were processed through Chromium 10X to generate single cell cDNA libraries attached to microbeads Microbeads were counted  and amplified by PCR  and the three prime end of the cDNA prepared for sequencing using a modified Nextera XT protocol,,age:20 somite stage|cell type:FACS sorted GFP+ endothelial cells|genotype:Etv2 heterozygous,GSM4273674,GSM4273674: 10X Etv2 heterozygous 20ss; Danio rerio; RNA Seq,GSM4273674,,1,Whole zebrafish embryos at 20ss were dissociated into a single cell suspension. GFP+ endothelial cells were sorted by FACS.Single cell suspensions were processed through Chromium 10X to generate single cell cDNA libraries attached to microbeads Microbeads were counted  and amplified by PCR  and the three prime end of the cDNA prepared for sequencing using a modified Nextera XT protocol,GEO Accession:GSM4273674,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP242096,,loader:fastq load.py|options:  readTypes=TTB   read1PairFiles=10X Het S2 L002 I1 001.fastq.gz   read2PairFiles=10X Het S2 L002 R1 001.fastq.gz   read3PairFiles=10X Het S2 L002 R2 001.fastq.gz,10X_Het_S2_L002_I1_001.fastq.gz 10X_Het_S2_L002_R1_001.fastq.gz 10X_Het_S2_L002_R2_001.fastq.gz,fastq fastq fastq,16500118362.0,90659991.0,GSM4273674 r2,0:8 1:27 2:147,A:4982587485;C:3409998223;G:3650593667;T:4454135325;N:2803662,8,27,147,,4982587485,3409998223,3650593667,4454135325,2803662,SRX7568763,SRS6004888,SRA1026915,GEO,Cincinnati Children's Hospital,1,0.85659,,0.09023,,0.84567,,0.51573,,147,,B,,usable mapping rate,illumina,hiseq_era,3prime,cdna_unspecified,nextera,sc,single_cell_droplet,10x,,United States,2020-01-15,Segmentation,Embryo,Endothelium,Cardiovascular System