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
40972,SRR3498294,SRX1756840,SRS1433371,SRP074848,PRJNA321321,microRNAs Establish and Maintain Uniform Cellular Phenotypes during the Architecture of Complex Tissues,GSE81340,Transcriptome Analysis,Proper functioning of tissues requires cells to behave in uniform  well organized ways. Conversely  many diseases involve increased cellular heterogeneity due to genetic and epigenetic alterations. Defining the mechanisms that counteract phenotypic variability is therefore critical to understand how tissues sustain homeostasis. Here  we carried out a single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single microRNA miRNA genes and multi gene miRNA families. We found that miRNA mutants exhibit a profound increase in cellular phenotypic variability of specific vascular traits. Genome wide analysis of endothelial miRNA target genes identified antagonistic regulatory nodes of vascular growth and morphogenesis signaling that allow variable cell behaviors when derepressed. Remarkably  lack of such miRNA activity greatly sensitized the vascular system to microenvironmental changes induced by pharmacological stress. We uncover a previously unrecognized role of miRNAs as a widespread protective mechanism that limits variability in cellular phenotypes. This discovery marks an important advance in our comprehension of how miRNAs function in the physiology of higher organisms. Overall design: Analysis of differential genes expression in Zebrafish endothelial cells for 4 different developmental stages in duplicate,parent bioproject:PRJNA321317,pubmed:28350988;pubmed:33273096,,NoEndo 72hpf E2,GSM2150819,,source name:Endothelial cell|developmental stage:72hpf|tissue:Endothelial|stain:GFP,NoEndo 72hpf E2,Illumina Casava1.7 software used for basecalling. Sequenced reads were trimmed for adaptor sequence  and masked for low complexity or low quality sequence  then mapped to Zv9 whole genome using STAR v2.3.0 Fragments Per Kilobase Of Exon Per Million Fragments Mapped FPKM were calculated using Cufflink software  Annotation gtf for Zv9 Genome build: Zv9 Supplementary files format and content: tab delimited text files include RPKM values for each Sample ...,Endothelial cell,,Transgenic fish were treated with Liberase to disociate the cells. post FACS sorting the GFP positive cells were lisate and RNA was harvested using Trizol reagent. Illumina TruSeq RNA libraries were prepared for sequencing using standard Illumina protocols,Zebrafish embryos were raised according standard protocols at 28˚C and according to protocols approved by Yale University Institutional Animal Care and Use Committee # 2015 11473.,developmental stage:72hpf|tissue:Endothelial|stain:GFP,GSM2150819,GSM2150819: NoEndo 72hpf E2; Danio rerio; miRNA Seq,GSM2150819,,1,Transgenic fish were treated with Liberase to disociate the cells. post FACS sorting the GFP positive cells were lisate and RNA was harvested using Trizol reagent. Illumina TruSeq RNA libraries were prepared for sequencing using standard Illumina protocols,GEO Accession:GSM2150819,miRNA-Seq,TRANSCRIPTOMIC,size fractionation,SINGLE,ILLUMINA,Illumina Genome Analyzer,,SRP074848,,,NoEndo_72hpf_E2.fastq.gz,fastq,797509876.0,10493551.0,GSM2150819 r1,0:76,A:182564842;C:199547592;G:199064466;T:216287390;N:45586,76,,,,182564842,199547592,199064466,216287390,45586,SRX1756840,SRS1433371,SRA424808,GEO,"Internal Medicine, Yale University",1,1e-05,,0.0,,1.0,,,,76,,T,,under 1.2% mapping rate,illumina,early_illumina,unknown,size_fractionation,trueseq,bulk,unknown,unknown,,United States,2016-05-11,Larval,Larval,Endothelium,Cardiovascular System
40973,SRR3498293,SRX1756839,SRS1433370,SRP074848,PRJNA321321,microRNAs Establish and Maintain Uniform Cellular Phenotypes during the Architecture of Complex Tissues,GSE81340,Transcriptome Analysis,Proper functioning of tissues requires cells to behave in uniform  well organized ways. Conversely  many diseases involve increased cellular heterogeneity due to genetic and epigenetic alterations. Defining the mechanisms that counteract phenotypic variability is therefore critical to understand how tissues sustain homeostasis. Here  we carried out a single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single microRNA miRNA genes and multi gene miRNA families. We found that miRNA mutants exhibit a profound increase in cellular phenotypic variability of specific vascular traits. Genome wide analysis of endothelial miRNA target genes identified antagonistic regulatory nodes of vascular growth and morphogenesis signaling that allow variable cell behaviors when derepressed. Remarkably  lack of such miRNA activity greatly sensitized the vascular system to microenvironmental changes induced by pharmacological stress. We uncover a previously unrecognized role of miRNAs as a widespread protective mechanism that limits variability in cellular phenotypes. This discovery marks an important advance in our comprehension of how miRNAs function in the physiology of higher organisms. Overall design: Analysis of differential genes expression in Zebrafish endothelial cells for 4 different developmental stages in duplicate,parent bioproject:PRJNA321317,pubmed:28350988;pubmed:33273096,,NoEndo 72hpf E1,GSM2150818,,source name:Endothelial cell|developmental stage:72hpf|tissue:Endothelial|stain:GFP,NoEndo 72hpf E1,Illumina Casava1.7 software used for basecalling. Sequenced reads were trimmed for adaptor sequence  and masked for low complexity or low quality sequence  then mapped to Zv9 whole genome using STAR v2.3.0 Fragments Per Kilobase Of Exon Per Million Fragments Mapped FPKM were calculated using Cufflink software  Annotation gtf for Zv9 Genome build: Zv9 Supplementary files format and content: tab delimited text files include RPKM values for each Sample ...,Endothelial cell,,Transgenic fish were treated with Liberase to disociate the cells. post FACS sorting the GFP positive cells were lisate and RNA was harvested using Trizol reagent. Illumina TruSeq RNA libraries were prepared for sequencing using standard Illumina protocols,Zebrafish embryos were raised according standard protocols at 28˚C and according to protocols approved by Yale University Institutional Animal Care and Use Committee # 2015 11473.,developmental stage:72hpf|tissue:Endothelial|stain:GFP,GSM2150818,GSM2150818: NoEndo 72hpf E1; Danio rerio; miRNA Seq,GSM2150818,,1,Transgenic fish were treated with Liberase to disociate the cells. post FACS sorting the GFP positive cells were lisate and RNA was harvested using Trizol reagent. Illumina TruSeq RNA libraries were prepared for sequencing using standard Illumina protocols,GEO Accession:GSM2150818,miRNA-Seq,TRANSCRIPTOMIC,size fractionation,SINGLE,ILLUMINA,Illumina Genome Analyzer,,SRP074848,,,NoEndo_72hpf_E1.fastq.gz,fastq,1864172232.0,24528582.0,GSM2150818 r1,0:76,A:426671762;C:469538477;G:458132395;T:509711525;N:118073,76,,,,426671762,469538477,458132395,509711525,118073,SRX1756839,SRS1433370,SRA424808,GEO,"Internal Medicine, Yale University",1,0.0,,0.0,,1.0,,,,76,,T,,under 1.2% mapping rate,illumina,early_illumina,unknown,size_fractionation,trueseq,bulk,unknown,unknown,,United States,2016-05-11,Larval,Larval,Endothelium,Cardiovascular System
40974,SRR3498292,SRX1756838,SRS1433369,SRP074848,PRJNA321321,microRNAs Establish and Maintain Uniform Cellular Phenotypes during the Architecture of Complex Tissues,GSE81340,Transcriptome Analysis,Proper functioning of tissues requires cells to behave in uniform  well organized ways. Conversely  many diseases involve increased cellular heterogeneity due to genetic and epigenetic alterations. Defining the mechanisms that counteract phenotypic variability is therefore critical to understand how tissues sustain homeostasis. Here  we carried out a single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single microRNA miRNA genes and multi gene miRNA families. We found that miRNA mutants exhibit a profound increase in cellular phenotypic variability of specific vascular traits. Genome wide analysis of endothelial miRNA target genes identified antagonistic regulatory nodes of vascular growth and morphogenesis signaling that allow variable cell behaviors when derepressed. Remarkably  lack of such miRNA activity greatly sensitized the vascular system to microenvironmental changes induced by pharmacological stress. We uncover a previously unrecognized role of miRNAs as a widespread protective mechanism that limits variability in cellular phenotypes. This discovery marks an important advance in our comprehension of how miRNAs function in the physiology of higher organisms. Overall design: Analysis of differential genes expression in Zebrafish endothelial cells for 4 different developmental stages in duplicate,parent bioproject:PRJNA321317,pubmed:28350988;pubmed:33273096,,NoEndo 6dpf E1,GSM2150817,,source name:Endothelial cell|developmental stage:6dpf|tissue:Endothelial|stain:GFP,NoEndo 6dpf E1,Illumina Casava1.7 software used for basecalling. Sequenced reads were trimmed for adaptor sequence  and masked for low complexity or low quality sequence  then mapped to Zv9 whole genome using STAR v2.3.0 Fragments Per Kilobase Of Exon Per Million Fragments Mapped FPKM were calculated using Cufflink software  Annotation gtf for Zv9 Genome build: Zv9 Supplementary files format and content: tab delimited text files include RPKM values for each Sample ...,Endothelial cell,,Transgenic fish were treated with Liberase to disociate the cells. post FACS sorting the GFP positive cells were lisate and RNA was harvested using Trizol reagent. Illumina TruSeq RNA libraries were prepared for sequencing using standard Illumina protocols,Zebrafish embryos were raised according standard protocols at 28˚C and according to protocols approved by Yale University Institutional Animal Care and Use Committee # 2015 11473.,developmental stage:6dpf|tissue:Endothelial|stain:GFP,GSM2150817,GSM2150817: NoEndo 6dpf E1; Danio rerio; miRNA Seq,GSM2150817,,1,Transgenic fish were treated with Liberase to disociate the cells. post FACS sorting the GFP positive cells were lisate and RNA was harvested using Trizol reagent. Illumina TruSeq RNA libraries were prepared for sequencing using standard Illumina protocols,GEO Accession:GSM2150817,miRNA-Seq,TRANSCRIPTOMIC,size fractionation,SINGLE,ILLUMINA,Illumina Genome Analyzer,,SRP074848,,,NoEndo_6dpf_E1.fastq.gz,fastq,1414849364.0,18616439.0,GSM2150817 r1,0:76,A:315250036;C:366906308;G:364673112;T:367938758;N:81150,76,,,,315250036,366906308,364673112,367938758,81150,SRX1756838,SRS1433369,SRA424808,GEO,"Internal Medicine, Yale University",1,1e-05,,0.0,,1.0,,,,76,,T,,under 1.2% mapping rate,illumina,early_illumina,unknown,size_fractionation,trueseq,bulk,unknown,unknown,,United States,2016-05-11,Larval,Larval,Endothelium,Cardiovascular System
40975,SRR3498291,SRX1756837,SRS1433368,SRP074848,PRJNA321321,microRNAs Establish and Maintain Uniform Cellular Phenotypes during the Architecture of Complex Tissues,GSE81340,Transcriptome Analysis,Proper functioning of tissues requires cells to behave in uniform  well organized ways. Conversely  many diseases involve increased cellular heterogeneity due to genetic and epigenetic alterations. Defining the mechanisms that counteract phenotypic variability is therefore critical to understand how tissues sustain homeostasis. Here  we carried out a single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single microRNA miRNA genes and multi gene miRNA families. We found that miRNA mutants exhibit a profound increase in cellular phenotypic variability of specific vascular traits. Genome wide analysis of endothelial miRNA target genes identified antagonistic regulatory nodes of vascular growth and morphogenesis signaling that allow variable cell behaviors when derepressed. Remarkably  lack of such miRNA activity greatly sensitized the vascular system to microenvironmental changes induced by pharmacological stress. We uncover a previously unrecognized role of miRNAs as a widespread protective mechanism that limits variability in cellular phenotypes. This discovery marks an important advance in our comprehension of how miRNAs function in the physiology of higher organisms. Overall design: Analysis of differential genes expression in Zebrafish endothelial cells for 4 different developmental stages in duplicate,parent bioproject:PRJNA321317,pubmed:28350988;pubmed:33273096,,NoEndo 48hpf E2,GSM2150816,,source name:Endothelial cell|developmental stage:48hpf|tissue:Endothelial|stain:GFP,NoEndo 48hpf E2,Illumina Casava1.7 software used for basecalling. Sequenced reads were trimmed for adaptor sequence  and masked for low complexity or low quality sequence  then mapped to Zv9 whole genome using STAR v2.3.0 Fragments Per Kilobase Of Exon Per Million Fragments Mapped FPKM were calculated using Cufflink software  Annotation gtf for Zv9 Genome build: Zv9 Supplementary files format and content: tab delimited text files include RPKM values for each Sample ...,Endothelial cell,,Transgenic fish were treated with Liberase to disociate the cells. post FACS sorting the GFP positive cells were lisate and RNA was harvested using Trizol reagent. Illumina TruSeq RNA libraries were prepared for sequencing using standard Illumina protocols,Zebrafish embryos were raised according standard protocols at 28˚C and according to protocols approved by Yale University Institutional Animal Care and Use Committee # 2015 11473.,developmental stage:48hpf|tissue:Endothelial|stain:GFP,GSM2150816,GSM2150816: NoEndo 48hpf E2; Danio rerio; miRNA Seq,GSM2150816,,1,Transgenic fish were treated with Liberase to disociate the cells. post FACS sorting the GFP positive cells were lisate and RNA was harvested using Trizol reagent. Illumina TruSeq RNA libraries were prepared for sequencing using standard Illumina protocols,GEO Accession:GSM2150816,miRNA-Seq,TRANSCRIPTOMIC,size fractionation,SINGLE,ILLUMINA,Illumina Genome Analyzer,,SRP074848,,,NoEndo_48hpf_E2.fastq.gz,fastq,553364740.0,7281115.0,GSM2150816 r1,0:76,A:129173344;C:134804122;G:141026546;T:148331467;N:29261,76,,,,129173344,134804122,141026546,148331467,29261,SRX1756837,SRS1433368,SRA424808,GEO,"Internal Medicine, Yale University",1,1e-05,,0.0,,0.99997,,0.0,,76,,T,,under 1.2% mapping rate,illumina,early_illumina,unknown,size_fractionation,trueseq,bulk,unknown,unknown,,United States,2016-05-11,Hatching,Embryo,Endothelium,Cardiovascular System
40976,SRR3498290,SRX1756836,SRS1433367,SRP074848,PRJNA321321,microRNAs Establish and Maintain Uniform Cellular Phenotypes during the Architecture of Complex Tissues,GSE81340,Transcriptome Analysis,Proper functioning of tissues requires cells to behave in uniform  well organized ways. Conversely  many diseases involve increased cellular heterogeneity due to genetic and epigenetic alterations. Defining the mechanisms that counteract phenotypic variability is therefore critical to understand how tissues sustain homeostasis. Here  we carried out a single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single microRNA miRNA genes and multi gene miRNA families. We found that miRNA mutants exhibit a profound increase in cellular phenotypic variability of specific vascular traits. Genome wide analysis of endothelial miRNA target genes identified antagonistic regulatory nodes of vascular growth and morphogenesis signaling that allow variable cell behaviors when derepressed. Remarkably  lack of such miRNA activity greatly sensitized the vascular system to microenvironmental changes induced by pharmacological stress. We uncover a previously unrecognized role of miRNAs as a widespread protective mechanism that limits variability in cellular phenotypes. This discovery marks an important advance in our comprehension of how miRNAs function in the physiology of higher organisms. Overall design: Analysis of differential genes expression in Zebrafish endothelial cells for 4 different developmental stages in duplicate,parent bioproject:PRJNA321317,pubmed:28350988;pubmed:33273096,,NoEndo 48hpf E1,GSM2150815,,source name:Endothelial cell|developmental stage:48hpf|tissue:Endothelial|stain:GFP,NoEndo 48hpf E1,Illumina Casava1.7 software used for basecalling. Sequenced reads were trimmed for adaptor sequence  and masked for low complexity or low quality sequence  then mapped to Zv9 whole genome using STAR v2.3.0 Fragments Per Kilobase Of Exon Per Million Fragments Mapped FPKM were calculated using Cufflink software  Annotation gtf for Zv9 Genome build: Zv9 Supplementary files format and content: tab delimited text files include RPKM values for each Sample ...,Endothelial cell,,Transgenic fish were treated with Liberase to disociate the cells. post FACS sorting the GFP positive cells were lisate and RNA was harvested using Trizol reagent. Illumina TruSeq RNA libraries were prepared for sequencing using standard Illumina protocols,Zebrafish embryos were raised according standard protocols at 28˚C and according to protocols approved by Yale University Institutional Animal Care and Use Committee # 2015 11473.,developmental stage:48hpf|tissue:Endothelial|stain:GFP,GSM2150815,GSM2150815: NoEndo 48hpf E1; Danio rerio; miRNA Seq,GSM2150815,,1,Transgenic fish were treated with Liberase to disociate the cells. post FACS sorting the GFP positive cells were lisate and RNA was harvested using Trizol reagent. Illumina TruSeq RNA libraries were prepared for sequencing using standard Illumina protocols,GEO Accession:GSM2150815,miRNA-Seq,TRANSCRIPTOMIC,size fractionation,SINGLE,ILLUMINA,Illumina Genome Analyzer,,SRP074848,,,NoEndo_48hpf_E1.fastq.gz,fastq,1204752152.0,15852002.0,GSM2150815 r1,0:76,A:297517299;C:293969730;G:317491224;T:295696492;N:77407,76,,,,297517299,293969730,317491224,295696492,77407,SRX1756836,SRS1433367,SRA424808,GEO,"Internal Medicine, Yale University",1,0.0,,0.0,,1.0,,,,76,,T,,under 1.2% mapping rate,illumina,early_illumina,unknown,size_fractionation,trueseq,bulk,unknown,unknown,,United States,2016-05-11,Hatching,Embryo,Endothelium,Cardiovascular System
40977,SRR3498289,SRX1756835,SRS1433366,SRP074848,PRJNA321321,microRNAs Establish and Maintain Uniform Cellular Phenotypes during the Architecture of Complex Tissues,GSE81340,Transcriptome Analysis,Proper functioning of tissues requires cells to behave in uniform  well organized ways. Conversely  many diseases involve increased cellular heterogeneity due to genetic and epigenetic alterations. Defining the mechanisms that counteract phenotypic variability is therefore critical to understand how tissues sustain homeostasis. Here  we carried out a single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single microRNA miRNA genes and multi gene miRNA families. We found that miRNA mutants exhibit a profound increase in cellular phenotypic variability of specific vascular traits. Genome wide analysis of endothelial miRNA target genes identified antagonistic regulatory nodes of vascular growth and morphogenesis signaling that allow variable cell behaviors when derepressed. Remarkably  lack of such miRNA activity greatly sensitized the vascular system to microenvironmental changes induced by pharmacological stress. We uncover a previously unrecognized role of miRNAs as a widespread protective mechanism that limits variability in cellular phenotypes. This discovery marks an important advance in our comprehension of how miRNAs function in the physiology of higher organisms. Overall design: Analysis of differential genes expression in Zebrafish endothelial cells for 4 different developmental stages in duplicate,parent bioproject:PRJNA321317,pubmed:28350988;pubmed:33273096,,NoEndo 24hpf E1,GSM2150814,,source name:Endothelial cell|developmental stage:24hpf|tissue:Endothelial|stain:GFP,NoEndo 24hpf E1,Illumina Casava1.7 software used for basecalling. Sequenced reads were trimmed for adaptor sequence  and masked for low complexity or low quality sequence  then mapped to Zv9 whole genome using STAR v2.3.0 Fragments Per Kilobase Of Exon Per Million Fragments Mapped FPKM were calculated using Cufflink software  Annotation gtf for Zv9 Genome build: Zv9 Supplementary files format and content: tab delimited text files include RPKM values for each Sample ...,Endothelial cell,,Transgenic fish were treated with Liberase to disociate the cells. post FACS sorting the GFP positive cells were lisate and RNA was harvested using Trizol reagent. Illumina TruSeq RNA libraries were prepared for sequencing using standard Illumina protocols,Zebrafish embryos were raised according standard protocols at 28˚C and according to protocols approved by Yale University Institutional Animal Care and Use Committee # 2015 11473.,developmental stage:24hpf|tissue:Endothelial|stain:GFP,GSM2150814,GSM2150814: NoEndo 24hpf E1; Danio rerio; miRNA Seq,GSM2150814,,1,Transgenic fish were treated with Liberase to disociate the cells. post FACS sorting the GFP positive cells were lisate and RNA was harvested using Trizol reagent. Illumina TruSeq RNA libraries were prepared for sequencing using standard Illumina protocols,GEO Accession:GSM2150814,miRNA-Seq,TRANSCRIPTOMIC,size fractionation,SINGLE,ILLUMINA,Illumina Genome Analyzer,,SRP074848,,,NoEndo_24hpf_E1.fastq.gz,fastq,1422085704.0,18711654.0,GSM2150814 r1,0:76,A:347700492;C:356065333;G:376424133;T:341806001;N:89745,76,,,,347700492,356065333,376424133,341806001,89745,SRX1756835,SRS1433366,SRA424808,GEO,"Internal Medicine, Yale University",1,0.0,,0.0,,1.0,,,,76,,T,,under 1.2% mapping rate,illumina,early_illumina,unknown,size_fractionation,trueseq,bulk,unknown,unknown,,United States,2016-05-11,Pharyngula,Embryo,Endothelium,Cardiovascular System
40978,SRR3498288,SRX1756834,SRS1433365,SRP074848,PRJNA321321,microRNAs Establish and Maintain Uniform Cellular Phenotypes during the Architecture of Complex Tissues,GSE81340,Transcriptome Analysis,Proper functioning of tissues requires cells to behave in uniform  well organized ways. Conversely  many diseases involve increased cellular heterogeneity due to genetic and epigenetic alterations. Defining the mechanisms that counteract phenotypic variability is therefore critical to understand how tissues sustain homeostasis. Here  we carried out a single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single microRNA miRNA genes and multi gene miRNA families. We found that miRNA mutants exhibit a profound increase in cellular phenotypic variability of specific vascular traits. Genome wide analysis of endothelial miRNA target genes identified antagonistic regulatory nodes of vascular growth and morphogenesis signaling that allow variable cell behaviors when derepressed. Remarkably  lack of such miRNA activity greatly sensitized the vascular system to microenvironmental changes induced by pharmacological stress. We uncover a previously unrecognized role of miRNAs as a widespread protective mechanism that limits variability in cellular phenotypes. This discovery marks an important advance in our comprehension of how miRNAs function in the physiology of higher organisms. Overall design: Analysis of differential genes expression in Zebrafish endothelial cells for 4 different developmental stages in duplicate,parent bioproject:PRJNA321317,pubmed:28350988;pubmed:33273096,,Endo 72hpf E2,GSM2150813,,source name:Endothelial cell|developmental stage:72hpf|tissue:Endothelial|stain:GFP,Endo 72hpf E2,Illumina Casava1.7 software used for basecalling. Sequenced reads were trimmed for adaptor sequence  and masked for low complexity or low quality sequence  then mapped to Zv9 whole genome using STAR v2.3.0 Fragments Per Kilobase Of Exon Per Million Fragments Mapped FPKM were calculated using Cufflink software  Annotation gtf for Zv9 Genome build: Zv9 Supplementary files format and content: tab delimited text files include RPKM values for each Sample ...,Endothelial cell,,Transgenic fish were treated with Liberase to disociate the cells. post FACS sorting the GFP positive cells were lisate and RNA was harvested using Trizol reagent. Illumina TruSeq RNA libraries were prepared for sequencing using standard Illumina protocols,Zebrafish embryos were raised according standard protocols at 28˚C and according to protocols approved by Yale University Institutional Animal Care and Use Committee # 2015 11473.,developmental stage:72hpf|tissue:Endothelial|stain:GFP,GSM2150813,GSM2150813: Endo 72hpf E2; Danio rerio; miRNA Seq,GSM2150813,,1,Transgenic fish were treated with Liberase to disociate the cells. post FACS sorting the GFP positive cells were lisate and RNA was harvested using Trizol reagent. Illumina TruSeq RNA libraries were prepared for sequencing using standard Illumina protocols,GEO Accession:GSM2150813,miRNA-Seq,TRANSCRIPTOMIC,size fractionation,SINGLE,ILLUMINA,Illumina Genome Analyzer,,SRP074848,,,Endo_72hpf_E2.fastq.gz,fastq,438128980.0,5764855.0,GSM2150813 r1,0:76,A:101851745;C:114159902;G:115733669;T:106360221;N:23443,76,,,,101851745,114159902,115733669,106360221,23443,SRX1756834,SRS1433365,SRA424808,GEO,"Internal Medicine, Yale University",1,2e-05,,1e-05,,1.0,,,,76,,T,,under 1.2% mapping rate,illumina,early_illumina,unknown,size_fractionation,trueseq,bulk,unknown,unknown,,United States,2016-05-11,Larval,Larval,Endothelium,Cardiovascular System
40979,SRR3498287,SRX1756833,SRS1433364,SRP074848,PRJNA321321,microRNAs Establish and Maintain Uniform Cellular Phenotypes during the Architecture of Complex Tissues,GSE81340,Transcriptome Analysis,Proper functioning of tissues requires cells to behave in uniform  well organized ways. Conversely  many diseases involve increased cellular heterogeneity due to genetic and epigenetic alterations. Defining the mechanisms that counteract phenotypic variability is therefore critical to understand how tissues sustain homeostasis. Here  we carried out a single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single microRNA miRNA genes and multi gene miRNA families. We found that miRNA mutants exhibit a profound increase in cellular phenotypic variability of specific vascular traits. Genome wide analysis of endothelial miRNA target genes identified antagonistic regulatory nodes of vascular growth and morphogenesis signaling that allow variable cell behaviors when derepressed. Remarkably  lack of such miRNA activity greatly sensitized the vascular system to microenvironmental changes induced by pharmacological stress. We uncover a previously unrecognized role of miRNAs as a widespread protective mechanism that limits variability in cellular phenotypes. This discovery marks an important advance in our comprehension of how miRNAs function in the physiology of higher organisms. Overall design: Analysis of differential genes expression in Zebrafish endothelial cells for 4 different developmental stages in duplicate,parent bioproject:PRJNA321317,pubmed:28350988;pubmed:33273096,,Endo 72hpf E1,GSM2150812,,source name:Endothelial cell|developmental stage:72hpf|tissue:Endothelial|stain:GFP,Endo 72hpf E1,Illumina Casava1.7 software used for basecalling. Sequenced reads were trimmed for adaptor sequence  and masked for low complexity or low quality sequence  then mapped to Zv9 whole genome using STAR v2.3.0 Fragments Per Kilobase Of Exon Per Million Fragments Mapped FPKM were calculated using Cufflink software  Annotation gtf for Zv9 Genome build: Zv9 Supplementary files format and content: tab delimited text files include RPKM values for each Sample ...,Endothelial cell,,Transgenic fish were treated with Liberase to disociate the cells. post FACS sorting the GFP positive cells were lisate and RNA was harvested using Trizol reagent. Illumina TruSeq RNA libraries were prepared for sequencing using standard Illumina protocols,Zebrafish embryos were raised according standard protocols at 28˚C and according to protocols approved by Yale University Institutional Animal Care and Use Committee # 2015 11473.,developmental stage:72hpf|tissue:Endothelial|stain:GFP,GSM2150812,GSM2150812: Endo 72hpf E1; Danio rerio; miRNA Seq,GSM2150812,,1,Transgenic fish were treated with Liberase to disociate the cells. post FACS sorting the GFP positive cells were lisate and RNA was harvested using Trizol reagent. Illumina TruSeq RNA libraries were prepared for sequencing using standard Illumina protocols,GEO Accession:GSM2150812,miRNA-Seq,TRANSCRIPTOMIC,size fractionation,SINGLE,ILLUMINA,Illumina Genome Analyzer,,SRP074848,,,Endo_72hpf_E1.fastq.gz,fastq,1267915068.0,16683093.0,GSM2150812 r1,0:76,A:321606522;C:310505837;G:323829249;T:311892892;N:80568,76,,,,321606522,310505837,323829249,311892892,80568,SRX1756833,SRS1433364,SRA424808,GEO,"Internal Medicine, Yale University",1,0.0,,0.0,,1.0,,,,76,,T,,under 1.2% mapping rate,illumina,early_illumina,unknown,size_fractionation,trueseq,bulk,unknown,unknown,,United States,2016-05-11,Larval,Larval,Endothelium,Cardiovascular System
40980,SRR3498286,SRX1756832,SRS1433363,SRP074848,PRJNA321321,microRNAs Establish and Maintain Uniform Cellular Phenotypes during the Architecture of Complex Tissues,GSE81340,Transcriptome Analysis,Proper functioning of tissues requires cells to behave in uniform  well organized ways. Conversely  many diseases involve increased cellular heterogeneity due to genetic and epigenetic alterations. Defining the mechanisms that counteract phenotypic variability is therefore critical to understand how tissues sustain homeostasis. Here  we carried out a single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single microRNA miRNA genes and multi gene miRNA families. We found that miRNA mutants exhibit a profound increase in cellular phenotypic variability of specific vascular traits. Genome wide analysis of endothelial miRNA target genes identified antagonistic regulatory nodes of vascular growth and morphogenesis signaling that allow variable cell behaviors when derepressed. Remarkably  lack of such miRNA activity greatly sensitized the vascular system to microenvironmental changes induced by pharmacological stress. We uncover a previously unrecognized role of miRNAs as a widespread protective mechanism that limits variability in cellular phenotypes. This discovery marks an important advance in our comprehension of how miRNAs function in the physiology of higher organisms. Overall design: Analysis of differential genes expression in Zebrafish endothelial cells for 4 different developmental stages in duplicate,parent bioproject:PRJNA321317,pubmed:28350988;pubmed:33273096,,Endo 6dpf E1,GSM2150811,,source name:Endothelial cell|developmental stage:6dpf|tissue:Endothelial|stain:GFP,Endo 6dpf E1,Illumina Casava1.7 software used for basecalling. Sequenced reads were trimmed for adaptor sequence  and masked for low complexity or low quality sequence  then mapped to Zv9 whole genome using STAR v2.3.0 Fragments Per Kilobase Of Exon Per Million Fragments Mapped FPKM were calculated using Cufflink software  Annotation gtf for Zv9 Genome build: Zv9 Supplementary files format and content: tab delimited text files include RPKM values for each Sample ...,Endothelial cell,,Transgenic fish were treated with Liberase to disociate the cells. post FACS sorting the GFP positive cells were lisate and RNA was harvested using Trizol reagent. Illumina TruSeq RNA libraries were prepared for sequencing using standard Illumina protocols,Zebrafish embryos were raised according standard protocols at 28˚C and according to protocols approved by Yale University Institutional Animal Care and Use Committee # 2015 11473.,developmental stage:6dpf|tissue:Endothelial|stain:GFP,GSM2150811,GSM2150811: Endo 6dpf E1; Danio rerio; miRNA Seq,GSM2150811,,1,Transgenic fish were treated with Liberase to disociate the cells. post FACS sorting the GFP positive cells were lisate and RNA was harvested using Trizol reagent. Illumina TruSeq RNA libraries were prepared for sequencing using standard Illumina protocols,GEO Accession:GSM2150811,miRNA-Seq,TRANSCRIPTOMIC,size fractionation,SINGLE,ILLUMINA,Illumina Genome Analyzer,,SRP074848,,,Endo_6dpf_E1.fastq.gz,fastq,890474824.0,11716774.0,GSM2150811 r1,0:76,A:230419087;C:212029155;G:232306960;T:215672618;N:47004,76,,,,230419087,212029155,232306960,215672618,47004,SRX1756832,SRS1433363,SRA424808,GEO,"Internal Medicine, Yale University",1,2e-05,,1e-05,,1.0,,,,76,,T,,under 1.2% mapping rate,illumina,early_illumina,unknown,size_fractionation,trueseq,bulk,unknown,unknown,,United States,2016-05-11,Larval,Larval,Endothelium,Cardiovascular System
40981,SRR3498285,SRX1756831,SRS1433362,SRP074848,PRJNA321321,microRNAs Establish and Maintain Uniform Cellular Phenotypes during the Architecture of Complex Tissues,GSE81340,Transcriptome Analysis,Proper functioning of tissues requires cells to behave in uniform  well organized ways. Conversely  many diseases involve increased cellular heterogeneity due to genetic and epigenetic alterations. Defining the mechanisms that counteract phenotypic variability is therefore critical to understand how tissues sustain homeostasis. Here  we carried out a single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single microRNA miRNA genes and multi gene miRNA families. We found that miRNA mutants exhibit a profound increase in cellular phenotypic variability of specific vascular traits. Genome wide analysis of endothelial miRNA target genes identified antagonistic regulatory nodes of vascular growth and morphogenesis signaling that allow variable cell behaviors when derepressed. Remarkably  lack of such miRNA activity greatly sensitized the vascular system to microenvironmental changes induced by pharmacological stress. We uncover a previously unrecognized role of miRNAs as a widespread protective mechanism that limits variability in cellular phenotypes. This discovery marks an important advance in our comprehension of how miRNAs function in the physiology of higher organisms. Overall design: Analysis of differential genes expression in Zebrafish endothelial cells for 4 different developmental stages in duplicate,parent bioproject:PRJNA321317,pubmed:28350988;pubmed:33273096,,Endo 48hpf E2,GSM2150810,,source name:Endothelial cell|developmental stage:48hpf|tissue:Endothelial|stain:GFP,Endo 48hpf E2,Illumina Casava1.7 software used for basecalling. Sequenced reads were trimmed for adaptor sequence  and masked for low complexity or low quality sequence  then mapped to Zv9 whole genome using STAR v2.3.0 Fragments Per Kilobase Of Exon Per Million Fragments Mapped FPKM were calculated using Cufflink software  Annotation gtf for Zv9 Genome build: Zv9 Supplementary files format and content: tab delimited text files include RPKM values for each Sample ...,Endothelial cell,,Transgenic fish were treated with Liberase to disociate the cells. post FACS sorting the GFP positive cells were lisate and RNA was harvested using Trizol reagent. Illumina TruSeq RNA libraries were prepared for sequencing using standard Illumina protocols,Zebrafish embryos were raised according standard protocols at 28˚C and according to protocols approved by Yale University Institutional Animal Care and Use Committee # 2015 11473.,developmental stage:48hpf|tissue:Endothelial|stain:GFP,GSM2150810,GSM2150810: Endo 48hpf E2; Danio rerio; miRNA Seq,GSM2150810,,1,Transgenic fish were treated with Liberase to disociate the cells. post FACS sorting the GFP positive cells were lisate and RNA was harvested using Trizol reagent. Illumina TruSeq RNA libraries were prepared for sequencing using standard Illumina protocols,GEO Accession:GSM2150810,miRNA-Seq,TRANSCRIPTOMIC,size fractionation,SINGLE,ILLUMINA,Illumina Genome Analyzer,,SRP074848,,,Endo_48hpf_E2.fastq.gz,fastq,1254556624.0,16507324.0,GSM2150810 r1,0:76,A:316229540;C:323340793;G:307552357;T:307354555;N:79379,76,,,,316229540,323340793,307552357,307354555,79379,SRX1756831,SRS1433362,SRA424808,GEO,"Internal Medicine, Yale University",1,0.0,,0.0,,1.0,,,,76,,T,,under 1.2% mapping rate,illumina,early_illumina,unknown,size_fractionation,trueseq,bulk,unknown,unknown,,United States,2016-05-11,Hatching,Embryo,Endothelium,Cardiovascular System
40982,SRR3498284,SRX1756830,SRS1433361,SRP074848,PRJNA321321,microRNAs Establish and Maintain Uniform Cellular Phenotypes during the Architecture of Complex Tissues,GSE81340,Transcriptome Analysis,Proper functioning of tissues requires cells to behave in uniform  well organized ways. Conversely  many diseases involve increased cellular heterogeneity due to genetic and epigenetic alterations. Defining the mechanisms that counteract phenotypic variability is therefore critical to understand how tissues sustain homeostasis. Here  we carried out a single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single microRNA miRNA genes and multi gene miRNA families. We found that miRNA mutants exhibit a profound increase in cellular phenotypic variability of specific vascular traits. Genome wide analysis of endothelial miRNA target genes identified antagonistic regulatory nodes of vascular growth and morphogenesis signaling that allow variable cell behaviors when derepressed. Remarkably  lack of such miRNA activity greatly sensitized the vascular system to microenvironmental changes induced by pharmacological stress. We uncover a previously unrecognized role of miRNAs as a widespread protective mechanism that limits variability in cellular phenotypes. This discovery marks an important advance in our comprehension of how miRNAs function in the physiology of higher organisms. Overall design: Analysis of differential genes expression in Zebrafish endothelial cells for 4 different developmental stages in duplicate,parent bioproject:PRJNA321317,pubmed:28350988;pubmed:33273096,,Endo 48hpf E1,GSM2150809,,source name:Endothelial cell|developmental stage:48hpf|tissue:Endothelial|stain:GFP,Endo 48hpf E1,Illumina Casava1.7 software used for basecalling. Sequenced reads were trimmed for adaptor sequence  and masked for low complexity or low quality sequence  then mapped to Zv9 whole genome using STAR v2.3.0 Fragments Per Kilobase Of Exon Per Million Fragments Mapped FPKM were calculated using Cufflink software  Annotation gtf for Zv9 Genome build: Zv9 Supplementary files format and content: tab delimited text files include RPKM values for each Sample ...,Endothelial cell,,Transgenic fish were treated with Liberase to disociate the cells. post FACS sorting the GFP positive cells were lisate and RNA was harvested using Trizol reagent. Illumina TruSeq RNA libraries were prepared for sequencing using standard Illumina protocols,Zebrafish embryos were raised according standard protocols at 28˚C and according to protocols approved by Yale University Institutional Animal Care and Use Committee # 2015 11473.,developmental stage:48hpf|tissue:Endothelial|stain:GFP,GSM2150809,GSM2150809: Endo 48hpf E1; Danio rerio; miRNA Seq,GSM2150809,,1,Transgenic fish were treated with Liberase to disociate the cells. post FACS sorting the GFP positive cells were lisate and RNA was harvested using Trizol reagent. Illumina TruSeq RNA libraries were prepared for sequencing using standard Illumina protocols,GEO Accession:GSM2150809,miRNA-Seq,TRANSCRIPTOMIC,size fractionation,SINGLE,ILLUMINA,Illumina Genome Analyzer,,SRP074848,,,Endo_48hpf_E1.fastq.gz,fastq,1449497080.0,19072330.0,GSM2150809 r1,0:76,A:362564557;C:370330864;G:364749441;T:351760774;N:91444,76,,,,362564557,370330864,364749441,351760774,91444,SRX1756830,SRS1433361,SRA424808,GEO,"Internal Medicine, Yale University",1,0.0,,0.0,,1.0,,,,76,,T,,under 1.2% mapping rate,illumina,early_illumina,unknown,size_fractionation,trueseq,bulk,unknown,unknown,,United States,2016-05-11,Hatching,Embryo,Endothelium,Cardiovascular System
40983,SRR3498283,SRX1756829,SRS1433360,SRP074848,PRJNA321321,microRNAs Establish and Maintain Uniform Cellular Phenotypes during the Architecture of Complex Tissues,GSE81340,Transcriptome Analysis,Proper functioning of tissues requires cells to behave in uniform  well organized ways. Conversely  many diseases involve increased cellular heterogeneity due to genetic and epigenetic alterations. Defining the mechanisms that counteract phenotypic variability is therefore critical to understand how tissues sustain homeostasis. Here  we carried out a single cell resolution screen of zebrafish embryonic blood vessels upon mutagenesis of single microRNA miRNA genes and multi gene miRNA families. We found that miRNA mutants exhibit a profound increase in cellular phenotypic variability of specific vascular traits. Genome wide analysis of endothelial miRNA target genes identified antagonistic regulatory nodes of vascular growth and morphogenesis signaling that allow variable cell behaviors when derepressed. Remarkably  lack of such miRNA activity greatly sensitized the vascular system to microenvironmental changes induced by pharmacological stress. We uncover a previously unrecognized role of miRNAs as a widespread protective mechanism that limits variability in cellular phenotypes. This discovery marks an important advance in our comprehension of how miRNAs function in the physiology of higher organisms. Overall design: Analysis of differential genes expression in Zebrafish endothelial cells for 4 different developmental stages in duplicate,parent bioproject:PRJNA321317,pubmed:28350988;pubmed:33273096,,Endo 24hpf E1,GSM2150808,,source name:Endothelial cell|developmental stage:24hpf|tissue:Endothelial|stain:GFP,Endo 24hpf E1,Illumina Casava1.7 software used for basecalling. Sequenced reads were trimmed for adaptor sequence  and masked for low complexity or low quality sequence  then mapped to Zv9 whole genome using STAR v2.3.0 Fragments Per Kilobase Of Exon Per Million Fragments Mapped FPKM were calculated using Cufflink software  Annotation gtf for Zv9 Genome build: Zv9 Supplementary files format and content: tab delimited text files include RPKM values for each Sample ...,Endothelial cell,,Transgenic fish were treated with Liberase to disociate the cells. post FACS sorting the GFP positive cells were lisate and RNA was harvested using Trizol reagent. Illumina TruSeq RNA libraries were prepared for sequencing using standard Illumina protocols,Zebrafish embryos were raised according standard protocols at 28˚C and according to protocols approved by Yale University Institutional Animal Care and Use Committee # 2015 11473.,developmental stage:24hpf|tissue:Endothelial|stain:GFP,GSM2150808,GSM2150808: Endo 24hpf E1; Danio rerio; miRNA Seq,GSM2150808,,1,Transgenic fish were treated with Liberase to disociate the cells. post FACS sorting the GFP positive cells were lisate and RNA was harvested using Trizol reagent. Illumina TruSeq RNA libraries were prepared for sequencing using standard Illumina protocols,GEO Accession:GSM2150808,miRNA-Seq,TRANSCRIPTOMIC,size fractionation,SINGLE,ILLUMINA,Illumina Genome Analyzer,,SRP074848,,,Endo_24hpf_E1.fastq.gz,fastq,1527500440.0,20098690.0,GSM2150808 r1,0:76,A:356712587;C:354608109;G:432977038;T:383106520;N:96186,76,,,,356712587,354608109,432977038,383106520,96186,SRX1756829,SRS1433360,SRA424808,GEO,"Internal Medicine, Yale University",1,0.0,,0.0,,1.0,,,,76,,T,,under 1.2% mapping rate,illumina,early_illumina,unknown,size_fractionation,trueseq,bulk,unknown,unknown,,United States,2016-05-11,Pharyngula,Embryo,Endothelium,Cardiovascular System
55379,SRR10323881,SRX7034716,SRS5554730,SRP226614,PRJNA578896,Repetitive elements engage Rig I and Mda5 in interplay with Lgp2 to enhance hematopoietic stem cell emergence,PRJNA578896,Other,In this study we examine the role of RIG I like receptors RLRs in hematopoietic stem and progenitor cell formation. We have performed extensive expression analysis and chromatin accessibility assays on endothelial and hemogenic endothelial cells in knockdown animals for all the RLR receptors. Additionally we did expression analysis on animals with knockdown of two receptors. Finally we examined the upregulation of repetitive elements in hemogenic endothelial cells post treatment with valproic acid VPA or decitabine.,,,,,danRer10 raw data,,strain:AB/tu|age:not applicable|sex:pooled male and female|tissue:endothelial and hemogenic endothelial|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq control for lgp2 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 2,10,10,NEBNext Low Input RNA Library Prep Kit,,,RNA-Seq,TRANSCRIPTOMIC,size fractionation,PAIRED,ILLUMINA,Illumina HiSeq 3000,,SRP226614,,,RNA_seq control for lgp2 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 2_R1.fastq.gz RNA_seq control for lgp2 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 2_R2.fastq.gz,fastq fastq,3356658750.0,22377725.0,RNA seq control for lgp2 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 2 R1.fastq.gz,0:75 1:75,A:875300673;C:782517555;G:796855605;T:901672776;N:312141,75,75,,,875300673,782517555,796855605,901672776,312141,SRX7034716,SRS5554730,SRA983011,"Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany|Department of Cellular and Molecular Immunology","Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany",2,0.68437,0.73326,0.04743,0.05194,0.80241,0.80517,0.51875,0.52196,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,size_fractionation,nebnext,bulk,unknown,unknown,,Germany,2019-10-24,Pharyngula,Embryo,Endothelium,Cardiovascular System
55380,SRR10323882,SRX7034715,SRS5554730,SRP226614,PRJNA578896,Repetitive elements engage Rig I and Mda5 in interplay with Lgp2 to enhance hematopoietic stem cell emergence,PRJNA578896,Other,In this study we examine the role of RIG I like receptors RLRs in hematopoietic stem and progenitor cell formation. We have performed extensive expression analysis and chromatin accessibility assays on endothelial and hemogenic endothelial cells in knockdown animals for all the RLR receptors. Additionally we did expression analysis on animals with knockdown of two receptors. Finally we examined the upregulation of repetitive elements in hemogenic endothelial cells post treatment with valproic acid VPA or decitabine.,,,,,danRer10 raw data,,strain:AB/tu|age:not applicable|sex:pooled male and female|tissue:endothelial and hemogenic endothelial|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq control for lgp2 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 1,9,9,NEBNext Low Input RNA Library Prep Kit,,,RNA-Seq,TRANSCRIPTOMIC,size fractionation,PAIRED,ILLUMINA,Illumina HiSeq 3000,,SRP226614,,,RNA_seq control for lgp2 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 1_R2.fastq.gz RNA_seq control for lgp2 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 1_R1.fastq.gz,fastq fastq,3459242400.0,23061616.0,RNA seq control for lgp2 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 1 R1.fastq.gz,0:75 1:75,A:924400584;C:762078140;G:779330250;T:993109509;N:323917,75,75,,,924400584,762078140,779330250,993109509,323917,SRX7034715,SRS5554730,SRA983011,"Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany|Department of Cellular and Molecular Immunology","Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany",2,0.67032,0.73764,0.07629,0.08303,0.80856,0.80748,0.52094,0.52695,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,size_fractionation,nebnext,bulk,unknown,unknown,,Germany,2019-10-24,Pharyngula,Embryo,Endothelium,Cardiovascular System
55381,SRR10323883,SRX7034714,SRS5554730,SRP226614,PRJNA578896,Repetitive elements engage Rig I and Mda5 in interplay with Lgp2 to enhance hematopoietic stem cell emergence,PRJNA578896,Other,In this study we examine the role of RIG I like receptors RLRs in hematopoietic stem and progenitor cell formation. We have performed extensive expression analysis and chromatin accessibility assays on endothelial and hemogenic endothelial cells in knockdown animals for all the RLR receptors. Additionally we did expression analysis on animals with knockdown of two receptors. Finally we examined the upregulation of repetitive elements in hemogenic endothelial cells post treatment with valproic acid VPA or decitabine.,,,,,danRer10 raw data,,strain:AB/tu|age:not applicable|sex:pooled male and female|tissue:endothelial and hemogenic endothelial|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq  mda5 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 2,8,8,NEBNext Low Input RNA Library Prep Kit,,,RNA-Seq,TRANSCRIPTOMIC,size fractionation,PAIRED,ILLUMINA,Illumina HiSeq 3000,,SRP226614,,,RNA_seq mda5 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 2_R1.fastq.gz RNA_seq mda5 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 2_R2.fastq.gz,fastq fastq,3238312500.0,21588750.0,RNA seq mda5 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 2 R1.fastq.gz,0:75 1:75,A:881635390;C:656958401;G:673596788;T:1025824968;N:296953,75,75,,,881635390,656958401,673596788,1025824968,296953,SRX7034714,SRS5554730,SRA983011,"Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany|Department of Cellular and Molecular Immunology","Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany",2,0.59623,0.72377,0.07781,0.08944,0.80608,0.8016,0.53277,0.53095,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,size_fractionation,nebnext,bulk,unknown,unknown,,Germany,2019-10-24,Pharyngula,Embryo,Endothelium,Cardiovascular System
55382,SRR10323884,SRX7034713,SRS5554730,SRP226614,PRJNA578896,Repetitive elements engage Rig I and Mda5 in interplay with Lgp2 to enhance hematopoietic stem cell emergence,PRJNA578896,Other,In this study we examine the role of RIG I like receptors RLRs in hematopoietic stem and progenitor cell formation. We have performed extensive expression analysis and chromatin accessibility assays on endothelial and hemogenic endothelial cells in knockdown animals for all the RLR receptors. Additionally we did expression analysis on animals with knockdown of two receptors. Finally we examined the upregulation of repetitive elements in hemogenic endothelial cells post treatment with valproic acid VPA or decitabine.,,,,,danRer10 raw data,,strain:AB/tu|age:not applicable|sex:pooled male and female|tissue:endothelial and hemogenic endothelial|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq  mda5 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 1,7,7,NEBNext Low Input RNA Library Prep Kit,,,RNA-Seq,TRANSCRIPTOMIC,size fractionation,PAIRED,ILLUMINA,Illumina HiSeq 3000,,SRP226614,,,RNA_seq mda5 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 1_R1.fastq.gz RNA_seq mda5 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 1_R2.fastq.gz,fastq fastq,3255021150.0,21700141.0,RNA seq mda5 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 1 R1.fastq.gz,0:75 1:75,A:858912760;C:733048670;G:750496371;T:912263495;N:299854,75,75,,,858912760,733048670,750496371,912263495,299854,SRX7034713,SRS5554730,SRA983011,"Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany|Department of Cellular and Molecular Immunology","Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany",2,0.65481,0.71883,0.05477,0.05995,0.7903,0.7921,0.51367,0.51188,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,size_fractionation,nebnext,bulk,unknown,unknown,,Germany,2019-10-24,Pharyngula,Embryo,Endothelium,Cardiovascular System
55383,SRR10323885,SRX7034712,SRS5554730,SRP226614,PRJNA578896,Repetitive elements engage Rig I and Mda5 in interplay with Lgp2 to enhance hematopoietic stem cell emergence,PRJNA578896,Other,In this study we examine the role of RIG I like receptors RLRs in hematopoietic stem and progenitor cell formation. We have performed extensive expression analysis and chromatin accessibility assays on endothelial and hemogenic endothelial cells in knockdown animals for all the RLR receptors. Additionally we did expression analysis on animals with knockdown of two receptors. Finally we examined the upregulation of repetitive elements in hemogenic endothelial cells post treatment with valproic acid VPA or decitabine.,,,,,danRer10 raw data,,strain:AB/tu|age:not applicable|sex:pooled male and female|tissue:endothelial and hemogenic endothelial|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq control for mda5 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 2,6,6,NEBNext Low Input RNA Library Prep Kit,,,RNA-Seq,TRANSCRIPTOMIC,size fractionation,PAIRED,ILLUMINA,Illumina HiSeq 3000,,SRP226614,,,RNA_seq control for mda5 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 2_R2.fastq.gz RNA_seq control for mda5 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 2_R1.fastq.gz,fastq fastq,2413394850.0,16089299.0,RNA seq control for mda5 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 2 R1.fastq.gz,0:75 1:75,A:660807483;C:490677840;G:505039519;T:756646234;N:223774,75,75,,,660807483,490677840,505039519,756646234,223774,SRX7034712,SRS5554730,SRA983011,"Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany|Department of Cellular and Molecular Immunology","Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany",2,0.60009,0.72319,0.09185,0.10528,0.82175,0.81815,0.5234,0.51725,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,size_fractionation,nebnext,bulk,unknown,unknown,,Germany,2019-10-24,Pharyngula,Embryo,Endothelium,Cardiovascular System
55384,SRR10323886,SRX7034711,SRS5554730,SRP226614,PRJNA578896,Repetitive elements engage Rig I and Mda5 in interplay with Lgp2 to enhance hematopoietic stem cell emergence,PRJNA578896,Other,In this study we examine the role of RIG I like receptors RLRs in hematopoietic stem and progenitor cell formation. We have performed extensive expression analysis and chromatin accessibility assays on endothelial and hemogenic endothelial cells in knockdown animals for all the RLR receptors. Additionally we did expression analysis on animals with knockdown of two receptors. Finally we examined the upregulation of repetitive elements in hemogenic endothelial cells post treatment with valproic acid VPA or decitabine.,,,,,danRer10 raw data,,strain:AB/tu|age:not applicable|sex:pooled male and female|tissue:endothelial and hemogenic endothelial|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq control for mda5 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 1,5,5,NEBNext Low Input RNA Library Prep Kit,,,RNA-Seq,TRANSCRIPTOMIC,size fractionation,PAIRED,ILLUMINA,Illumina HiSeq 3000,,SRP226614,,,RNA_seq control for mda5 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 1_R1.fastq.gz RNA_seq control for mda5 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 1_R2.fastq.gz,fastq fastq,3124357200.0,20829048.0,RNA seq control for mda5 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 1 R1.fastq.gz,0:75 1:75,A:844721216;C:673572690;G:689308705;T:916479849;N:274740,75,75,,,844721216,673572690,689308705,916479849,274740,SRX7034711,SRS5554730,SRA983011,"Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany|Department of Cellular and Molecular Immunology","Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany",2,0.66396,0.73861,0.09392,0.10351,0.80856,0.80797,0.53225,0.5369,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,size_fractionation,nebnext,bulk,unknown,unknown,,Germany,2019-10-24,Pharyngula,Embryo,Endothelium,Cardiovascular System
55385,SRR10323891,SRX7034706,SRS5554730,SRP226614,PRJNA578896,Repetitive elements engage Rig I and Mda5 in interplay with Lgp2 to enhance hematopoietic stem cell emergence,PRJNA578896,Other,In this study we examine the role of RIG I like receptors RLRs in hematopoietic stem and progenitor cell formation. We have performed extensive expression analysis and chromatin accessibility assays on endothelial and hemogenic endothelial cells in knockdown animals for all the RLR receptors. Additionally we did expression analysis on animals with knockdown of two receptors. Finally we examined the upregulation of repetitive elements in hemogenic endothelial cells post treatment with valproic acid VPA or decitabine.,,,,,danRer10 raw data,,strain:AB/tu|age:not applicable|sex:pooled male and female|tissue:endothelial and hemogenic endothelial|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq  rig 1 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 2,4,4,NEBNext Low Input RNA Library Prep Kit,,,RNA-Seq,TRANSCRIPTOMIC,size fractionation,PAIRED,ILLUMINA,Illumina HiSeq 3000,,SRP226614,,,RNA_seq rig_1 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 2_R2.fastq.gz RNA_seq rig_1 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 2_R1.fastq.gz,fastq fastq,2812593000.0,18750620.0,RNA seq rig 1 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 2 R1.fastq.gz,0:75 1:75,A:759189725;C:611361876;G:625876145;T:815905469;N:259785,75,75,,,759189725,611361876,625876145,815905469,259785,SRX7034706,SRS5554730,SRA983011,"Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany|Department of Cellular and Molecular Immunology","Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany",2,0.63609,0.70403,0.08285,0.0932,0.79847,0.79959,0.52487,0.52941,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,size_fractionation,nebnext,bulk,unknown,unknown,,Germany,2019-10-24,Pharyngula,Embryo,Endothelium,Cardiovascular System
55386,SRR10323898,SRX7034699,SRS5554730,SRP226614,PRJNA578896,Repetitive elements engage Rig I and Mda5 in interplay with Lgp2 to enhance hematopoietic stem cell emergence,PRJNA578896,Other,In this study we examine the role of RIG I like receptors RLRs in hematopoietic stem and progenitor cell formation. We have performed extensive expression analysis and chromatin accessibility assays on endothelial and hemogenic endothelial cells in knockdown animals for all the RLR receptors. Additionally we did expression analysis on animals with knockdown of two receptors. Finally we examined the upregulation of repetitive elements in hemogenic endothelial cells post treatment with valproic acid VPA or decitabine.,,,,,danRer10 raw data,,strain:AB/tu|age:not applicable|sex:pooled male and female|tissue:endothelial and hemogenic endothelial|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq  decitabine treatment in hemogenic endothelial cell 26hpf replicate 2,24,24,NEBNext Low Input RNA Library Prep Kit,,,RNA-Seq,TRANSCRIPTOMIC,size fractionation,PAIRED,ILLUMINA,Illumina HiSeq 3000,,SRP226614,,,RNA_seq decitabine treatment in hemogenic endothelial cell 26hpf replicate 2_R2.fastq.gz RNA_seq decitabine treatment in hemogenic endothelial cell 26hpf replicate 2_R1.fastq.gz,fastq fastq,5849571450.0,38997143.0,RNA seq decitabine treatment in hemogenic endothelial cell 26hpf replicate 2 R1.fastq.gz,0:75 1:75,A:1574421853;C:1316832574;G:1315527058;T:1642305644;N:484321,75,75,,,1574421853,1316832574,1315527058,1642305644,484321,SRX7034699,SRS5554730,SRA983011,"Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany|Department of Cellular and Molecular Immunology","Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany",2,0.78221,0.84034,0.0684,0.07089,0.76607,0.77025,0.50712,0.50772,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,size_fractionation,nebnext,bulk,unknown,unknown,,Germany,2019-10-24,Pharyngula,Embryo,Endothelium,Cardiovascular System
55387,SRR10323899,SRX7034698,SRS5554730,SRP226614,PRJNA578896,Repetitive elements engage Rig I and Mda5 in interplay with Lgp2 to enhance hematopoietic stem cell emergence,PRJNA578896,Other,In this study we examine the role of RIG I like receptors RLRs in hematopoietic stem and progenitor cell formation. We have performed extensive expression analysis and chromatin accessibility assays on endothelial and hemogenic endothelial cells in knockdown animals for all the RLR receptors. Additionally we did expression analysis on animals with knockdown of two receptors. Finally we examined the upregulation of repetitive elements in hemogenic endothelial cells post treatment with valproic acid VPA or decitabine.,,,,,danRer10 raw data,,strain:AB/tu|age:not applicable|sex:pooled male and female|tissue:endothelial and hemogenic endothelial|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq decitabine treatment in hemogenic endothelial cell 26hpf replicate 1,23,23,NEBNext Low Input RNA Library Prep Kit,,,RNA-Seq,TRANSCRIPTOMIC,size fractionation,PAIRED,ILLUMINA,Illumina HiSeq 3000,,SRP226614,,,RNA_seq decitabine treatment in hemogenic endothelial cell 26hpf replicate 1_R1.fastq.gz RNA_seq decitabine treatment in hemogenic endothelial cell 26hpf replicate 1_R2.fastq.gz,fastq fastq,5656815000.0,37712100.0,RNA seq decitabine treatment in hemogenic endothelial cell 26hpf replicate 1 R1.fastq.gz,0:75 1:75,A:1487198866;C:1332723090;G:1275197163;T:1514410765;N:47285116,75,75,,,1487198866,1332723090,1275197163,1514410765,47285116,SRX7034698,SRS5554730,SRA983011,"Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany|Department of Cellular and Molecular Immunology","Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany",2,0.86399,0.76012,0.0587,0.05779,0.76461,0.9105,0.49754,0.51037,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,size_fractionation,nebnext,bulk,unknown,unknown,,Germany,2019-10-24,Pharyngula,Embryo,Endothelium,Cardiovascular System
55388,SRR10323900,SRX7034697,SRS5554730,SRP226614,PRJNA578896,Repetitive elements engage Rig I and Mda5 in interplay with Lgp2 to enhance hematopoietic stem cell emergence,PRJNA578896,Other,In this study we examine the role of RIG I like receptors RLRs in hematopoietic stem and progenitor cell formation. We have performed extensive expression analysis and chromatin accessibility assays on endothelial and hemogenic endothelial cells in knockdown animals for all the RLR receptors. Additionally we did expression analysis on animals with knockdown of two receptors. Finally we examined the upregulation of repetitive elements in hemogenic endothelial cells post treatment with valproic acid VPA or decitabine.,,,,,danRer10 raw data,,strain:AB/tu|age:not applicable|sex:pooled male and female|tissue:endothelial and hemogenic endothelial|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq  VPA treatment in hemogenic endothelial cell 26hpf replicate 2,22,22,NEBNext Low Input RNA Library Prep Kit,,,RNA-Seq,TRANSCRIPTOMIC,size fractionation,PAIRED,ILLUMINA,Illumina HiSeq 3000,,SRP226614,,,RNA_seq VPA treatment in hemogenic endothelial cell 26hpf replicate 2_R2.fastq.gz RNA_seq VPA treatment in hemogenic endothelial cell 26hpf replicate 2_R1.fastq.gz,fastq fastq,5978780250.0,39858535.0,RNA seq VPA treatment in hemogenic endothelial cell 26hpf replicate 2 R1.fastq.gz,0:75 1:75,A:1580804547;C:1404640964;G:1399714637;T:1593586843;N:33259,75,75,,,1580804547,1404640964,1399714637,1593586843,33259,SRX7034697,SRS5554730,SRA983011,"Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany|Department of Cellular and Molecular Immunology","Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany",2,0.92216,0.92477,0.04155,0.04126,0.74537,0.7512,0.48148,0.49049,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,size_fractionation,nebnext,bulk,unknown,unknown,,Germany,2019-10-24,Pharyngula,Embryo,Endothelium,Cardiovascular System
55389,SRR10323901,SRX7034696,SRS5554730,SRP226614,PRJNA578896,Repetitive elements engage Rig I and Mda5 in interplay with Lgp2 to enhance hematopoietic stem cell emergence,PRJNA578896,Other,In this study we examine the role of RIG I like receptors RLRs in hematopoietic stem and progenitor cell formation. We have performed extensive expression analysis and chromatin accessibility assays on endothelial and hemogenic endothelial cells in knockdown animals for all the RLR receptors. Additionally we did expression analysis on animals with knockdown of two receptors. Finally we examined the upregulation of repetitive elements in hemogenic endothelial cells post treatment with valproic acid VPA or decitabine.,,,,,danRer10 raw data,,strain:AB/tu|age:not applicable|sex:pooled male and female|tissue:endothelial and hemogenic endothelial|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq VPA or decitabine treatment in hemogenic endothelial cell 26hpf replicate 1,21,21,NEBNext Low Input RNA Library Prep Kit,,,RNA-Seq,TRANSCRIPTOMIC,size fractionation,PAIRED,ILLUMINA,Illumina HiSeq 3000,,SRP226614,,,RNA_seq VPA treatment in hemogenic endothelial cell 26hpf replicate 1_R1.fastq.gz RNA_seq VPA treatment in hemogenic endothelial cell 26hpf replicate 1_R2.fastq.gz,fastq fastq,8777730900.0,58518206.0,RNA seq VPA treatment in hemogenic endothelial cell 26hpf replicate 1 R1.fastq.gz,0:75 1:75,A:2331650285;C:2053244561;G:2042022053;T:2350762388;N:51613,75,75,,,2331650285,2053244561,2042022053,2350762388,51613,SRX7034696,SRS5554730,SRA983011,"Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany|Department of Cellular and Molecular Immunology","Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany",2,0.92143,0.92455,0.04604,0.04567,0.73361,0.73923,0.4802,0.48613,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,size_fractionation,nebnext,bulk,unknown,unknown,,Germany,2019-10-24,Pharyngula,Embryo,Endothelium,Cardiovascular System
55390,SRR10323902,SRX7034695,SRS5554730,SRP226614,PRJNA578896,Repetitive elements engage Rig I and Mda5 in interplay with Lgp2 to enhance hematopoietic stem cell emergence,PRJNA578896,Other,In this study we examine the role of RIG I like receptors RLRs in hematopoietic stem and progenitor cell formation. We have performed extensive expression analysis and chromatin accessibility assays on endothelial and hemogenic endothelial cells in knockdown animals for all the RLR receptors. Additionally we did expression analysis on animals with knockdown of two receptors. Finally we examined the upregulation of repetitive elements in hemogenic endothelial cells post treatment with valproic acid VPA or decitabine.,,,,,danRer10 raw data,,strain:AB/tu|age:not applicable|sex:pooled male and female|tissue:endothelial and hemogenic endothelial|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq  rig 1 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 1,3,3,NEBNext Low Input RNA Library Prep Kit,,,RNA-Seq,TRANSCRIPTOMIC,size fractionation,PAIRED,ILLUMINA,Illumina HiSeq 3000,,SRP226614,,,RNA_seq rig_1 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 1_R1.fastq.gz RNA_seq rig_1 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 1_R2.fastq.gz,fastq fastq,3613041150.0,24086941.0,RNA seq rig 1 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 1 R1.fastq.gz,0:75 1:75,A:972417798;C:795483066;G:808300399;T:1036510724;N:329163,75,75,,,972417798,795483066,808300399,1036510724,329163,SRX7034695,SRS5554730,SRA983011,"Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany|Department of Cellular and Molecular Immunology","Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany",2,0.66853,0.7231,0.08329,0.0907,0.78953,0.79131,0.51481,0.52637,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,size_fractionation,nebnext,bulk,unknown,unknown,,Germany,2019-10-24,Pharyngula,Embryo,Endothelium,Cardiovascular System
55391,SRR10323903,SRX7034694,SRS5554730,SRP226614,PRJNA578896,Repetitive elements engage Rig I and Mda5 in interplay with Lgp2 to enhance hematopoietic stem cell emergence,PRJNA578896,Other,In this study we examine the role of RIG I like receptors RLRs in hematopoietic stem and progenitor cell formation. We have performed extensive expression analysis and chromatin accessibility assays on endothelial and hemogenic endothelial cells in knockdown animals for all the RLR receptors. Additionally we did expression analysis on animals with knockdown of two receptors. Finally we examined the upregulation of repetitive elements in hemogenic endothelial cells post treatment with valproic acid VPA or decitabine.,,,,,danRer10 raw data,,strain:AB/tu|age:not applicable|sex:pooled male and female|tissue:endothelial and hemogenic endothelial|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq control for VPA or decitabine treatment in hemogenic endothelial cell 26hpf replicate 2,20,20,NEBNext Low Input RNA Library Prep Kit,,,RNA-Seq,TRANSCRIPTOMIC,size fractionation,PAIRED,ILLUMINA,Illumina HiSeq 3000,,SRP226614,,,RNA_seq control for VPA_or_decitabine treatment in hemogenic endothelial cell 26hpf replicate 2_R1.fastq.gz RNA_seq control for VPA_or_decitabine treatment in hemogenic endothelial cell 26hpf replicate 2_R2.fastq.gz,fastq fastq,7211828100.0,48078854.0,RNA seq control for VPA or decitabine treatment in hemogenic endothelial cell 26hpf replicate 2 R1.fastq.gz,0:75 1:75,A:1904350731;C:1693709371;G:1687946675;T:1925778331;N:42992,75,75,,,1904350731,1693709371,1687946675,1925778331,42992,SRX7034694,SRS5554730,SRA983011,"Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany|Department of Cellular and Molecular Immunology","Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany",2,0.91819,0.92224,0.03958,0.03841,0.75584,0.76161,0.46923,0.46415,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,size_fractionation,nebnext,bulk,unknown,unknown,,Germany,2019-10-24,Pharyngula,Embryo,Endothelium,Cardiovascular System
55392,SRR10323904,SRX7034693,SRS5554730,SRP226614,PRJNA578896,Repetitive elements engage Rig I and Mda5 in interplay with Lgp2 to enhance hematopoietic stem cell emergence,PRJNA578896,Other,In this study we examine the role of RIG I like receptors RLRs in hematopoietic stem and progenitor cell formation. We have performed extensive expression analysis and chromatin accessibility assays on endothelial and hemogenic endothelial cells in knockdown animals for all the RLR receptors. Additionally we did expression analysis on animals with knockdown of two receptors. Finally we examined the upregulation of repetitive elements in hemogenic endothelial cells post treatment with valproic acid VPA or decitabine.,,,,,danRer10 raw data,,strain:AB/tu|age:not applicable|sex:pooled male and female|tissue:endothelial and hemogenic endothelial|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq control for VPA treatment in hemogenic endothelial cell 26hpf replicate 1,19,19,NEBNext Low Input RNA Library Prep Kit,,,RNA-Seq,TRANSCRIPTOMIC,size fractionation,PAIRED,ILLUMINA,Illumina HiSeq 3000,,SRP226614,,,RNA_seq control for VPA_or_decitabine treatment in hemogenic endothelial cell 26hpf replicate 1_R1.fastq.gz RNA_seq control for VPA_or_decitabine treatment in hemogenic endothelial cell 26hpf replicate 1_R2.fastq.gz,fastq fastq,8021297850.0,53475319.0,RNA seq control for VPA or decitabine treatment in hemogenic endothelial cell 26hpf replicate 1 R1.fastq.gz,0:75 1:75,A:2121666298;C:1880005094;G:1872358379;T:2147221627;N:46452,75,75,,,2121666298,1880005094,1872358379,2147221627,46452,SRX7034693,SRS5554730,SRA983011,"Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany|Department of Cellular and Molecular Immunology","Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany",2,0.91273,0.91897,0.0437,0.04345,0.75485,0.76037,0.46259,0.47199,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,size_fractionation,nebnext,bulk,unknown,unknown,,Germany,2019-10-24,Pharyngula,Embryo,Endothelium,Cardiovascular System
55393,SRR10323905,SRX7034692,SRS5554730,SRP226614,PRJNA578896,Repetitive elements engage Rig I and Mda5 in interplay with Lgp2 to enhance hematopoietic stem cell emergence,PRJNA578896,Other,In this study we examine the role of RIG I like receptors RLRs in hematopoietic stem and progenitor cell formation. We have performed extensive expression analysis and chromatin accessibility assays on endothelial and hemogenic endothelial cells in knockdown animals for all the RLR receptors. Additionally we did expression analysis on animals with knockdown of two receptors. Finally we examined the upregulation of repetitive elements in hemogenic endothelial cells post treatment with valproic acid VPA or decitabine.,,,,,danRer10 raw data,,strain:AB/tu|age:not applicable|sex:pooled male and female|tissue:endothelial and hemogenic endothelial|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq mda5 lgp2 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 2,18,18,TruSeq stranded mRNA,,,RNA-Seq,TRANSCRIPTOMIC,size fractionation,PAIRED,ILLUMINA,Illumina HiSeq 3000,,SRP226614,,,RNA_seq mda5_lgp2 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 2_R1.fastq.gz RNA_seq mda5_lgp2 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 2_R2.fastq.gz,fastq fastq,4925792850.0,32838619.0,RNA seq mda5 lgp2 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 2 R1.fastq.gz,0:75 1:75,A:1327496924;C:1143172265;G:1121827107;T:1332765205;N:531349,75,75,,,1327496924,1143172265,1121827107,1332765205,531349,SRX7034692,SRS5554730,SRA983011,"Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany|Department of Cellular and Molecular Immunology","Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany",2,0.9235,0.923,0.07189,0.07157,0.74576,0.7486,0.46424,0.46997,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,size_fractionation,trueseq,bulk,unknown,unknown,,Germany,2019-10-24,Pharyngula,Embryo,Endothelium,Cardiovascular System
55394,SRR10323906,SRX7034691,SRS5554730,SRP226614,PRJNA578896,Repetitive elements engage Rig I and Mda5 in interplay with Lgp2 to enhance hematopoietic stem cell emergence,PRJNA578896,Other,In this study we examine the role of RIG I like receptors RLRs in hematopoietic stem and progenitor cell formation. We have performed extensive expression analysis and chromatin accessibility assays on endothelial and hemogenic endothelial cells in knockdown animals for all the RLR receptors. Additionally we did expression analysis on animals with knockdown of two receptors. Finally we examined the upregulation of repetitive elements in hemogenic endothelial cells post treatment with valproic acid VPA or decitabine.,,,,,danRer10 raw data,,strain:AB/tu|age:not applicable|sex:pooled male and female|tissue:endothelial and hemogenic endothelial|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq  mda5 lgp2 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 1,17,17,TruSeq stranded mRNA,,,RNA-Seq,TRANSCRIPTOMIC,size fractionation,PAIRED,ILLUMINA,Illumina HiSeq 3000,,SRP226614,,,RNA_seq mda5_lgp2 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 1_R1.fastq.gz RNA_seq mda5_lgp2 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 1_R2.fastq.gz,fastq fastq,4481194200.0,29874628.0,RNA seq mda5 lgp2 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 1 R1.fastq.gz,0:75 1:75,A:1207561849;C:1040055195;G:1022613796;T:1210492037;N:471323,75,75,,,1207561849,1040055195,1022613796,1210492037,471323,SRX7034691,SRS5554730,SRA983011,"Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany|Department of Cellular and Molecular Immunology","Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany",2,0.92094,0.92157,0.07292,0.07281,0.74704,0.75067,0.47205,0.47416,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,size_fractionation,trueseq,bulk,unknown,unknown,,Germany,2019-10-24,Pharyngula,Embryo,Endothelium,Cardiovascular System
55395,SRR10323907,SRX7034690,SRS5554730,SRP226614,PRJNA578896,Repetitive elements engage Rig I and Mda5 in interplay with Lgp2 to enhance hematopoietic stem cell emergence,PRJNA578896,Other,In this study we examine the role of RIG I like receptors RLRs in hematopoietic stem and progenitor cell formation. We have performed extensive expression analysis and chromatin accessibility assays on endothelial and hemogenic endothelial cells in knockdown animals for all the RLR receptors. Additionally we did expression analysis on animals with knockdown of two receptors. Finally we examined the upregulation of repetitive elements in hemogenic endothelial cells post treatment with valproic acid VPA or decitabine.,,,,,danRer10 raw data,,strain:AB/tu|age:not applicable|sex:pooled male and female|tissue:endothelial and hemogenic endothelial|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq  rig 1 lgp2 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 2,16,16,TruSeq stranded mRNA,,,RNA-Seq,TRANSCRIPTOMIC,size fractionation,PAIRED,ILLUMINA,Illumina HiSeq 3000,,SRP226614,,,RNA_seq rig_1_lgp2 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 2_R2.fastq.gz RNA_seq rig_1_lgp2 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 2_R1.fastq.gz,fastq fastq,2071385250.0,13809235.0,RNA seq rig 1 lgp2 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 2 R1.fastq.gz,0:75 1:75,A:497024628;C:535934066;G:538798491;T:499539772;N:88293,75,75,,,497024628,535934066,538798491,499539772,88293,SRX7034690,SRS5554730,SRA983011,"Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany|Department of Cellular and Molecular Immunology","Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany",2,0.92507,0.92563,0.0745,0.07106,0.74148,0.74186,0.5137,0.52923,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,size_fractionation,trueseq,bulk,unknown,unknown,,Germany,2019-10-24,Pharyngula,Embryo,Endothelium,Cardiovascular System
55396,SRR10323908,SRX7034689,SRS5554730,SRP226614,PRJNA578896,Repetitive elements engage Rig I and Mda5 in interplay with Lgp2 to enhance hematopoietic stem cell emergence,PRJNA578896,Other,In this study we examine the role of RIG I like receptors RLRs in hematopoietic stem and progenitor cell formation. We have performed extensive expression analysis and chromatin accessibility assays on endothelial and hemogenic endothelial cells in knockdown animals for all the RLR receptors. Additionally we did expression analysis on animals with knockdown of two receptors. Finally we examined the upregulation of repetitive elements in hemogenic endothelial cells post treatment with valproic acid VPA or decitabine.,,,,,danRer10 raw data,,strain:AB/tu|age:not applicable|sex:pooled male and female|tissue:endothelial and hemogenic endothelial|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq  rig 1 lgp2 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 1,15,15,TruSeq stranded mRNA,,,RNA-Seq,TRANSCRIPTOMIC,size fractionation,PAIRED,ILLUMINA,Illumina HiSeq 3000,,SRP226614,,,RNA_seq rig_1_lgp2 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 1_R1.fastq.gz RNA_seq rig_1_lgp2 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 1_R2.fastq.gz,fastq fastq,1708336800.0,11388912.0,RNA seq rig 1 lgp2 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 1 R1.fastq.gz,0:75 1:75,A:413739883;C:438115098;G:440441368;T:415968029;N:72422,75,75,,,413739883,438115098,440441368,415968029,72422,SRX7034689,SRS5554730,SRA983011,"Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany|Department of Cellular and Molecular Immunology","Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany",2,0.92948,0.93123,0.08112,0.07757,0.7472,0.74921,0.49384,0.502,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,size_fractionation,trueseq,bulk,unknown,unknown,,Germany,2019-10-24,Pharyngula,Embryo,Endothelium,Cardiovascular System
55397,SRR10323909,SRX7034688,SRS5554730,SRP226614,PRJNA578896,Repetitive elements engage Rig I and Mda5 in interplay with Lgp2 to enhance hematopoietic stem cell emergence,PRJNA578896,Other,In this study we examine the role of RIG I like receptors RLRs in hematopoietic stem and progenitor cell formation. We have performed extensive expression analysis and chromatin accessibility assays on endothelial and hemogenic endothelial cells in knockdown animals for all the RLR receptors. Additionally we did expression analysis on animals with knockdown of two receptors. Finally we examined the upregulation of repetitive elements in hemogenic endothelial cells post treatment with valproic acid VPA or decitabine.,,,,,danRer10 raw data,,strain:AB/tu|age:not applicable|sex:pooled male and female|tissue:endothelial and hemogenic endothelial|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq control for double morphants endothelial hemogenic endothelial cell 26hpf replicate 2,14,14,TruSeq stranded mRNA,,,RNA-Seq,TRANSCRIPTOMIC,size fractionation,PAIRED,ILLUMINA,Illumina HiSeq 3000,,SRP226614,,,RNA_seq control for double morphants endothelial_hemogenic endothelial cell 26hpf replicate 2_R1.fastq.gz RNA_seq control for double morphants endothelial_hemogenic endothelial cell 26hpf replicate 2_R2.fastq.gz,fastq fastq,2742841800.0,18285612.0,RNA seq control for double morphants endothelial hemogenic endothelial cell 26hpf replicate 2 R1.fastq.gz,0:75 1:75,A:771268784;C:600759252;G:605972112;T:764554978;N:286674,75,75,,,771268784,600759252,605972112,764554978,286674,SRX7034688,SRS5554730,SRA983011,"Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany|Department of Cellular and Molecular Immunology","Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany",2,0.91195,0.91276,0.15552,0.15531,0.7191,0.7247,0.487,0.47379,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,size_fractionation,trueseq,bulk,unknown,unknown,,Germany,2019-10-24,Pharyngula,Embryo,Endothelium,Cardiovascular System
55398,SRR10323910,SRX7034687,SRS5554730,SRP226614,PRJNA578896,Repetitive elements engage Rig I and Mda5 in interplay with Lgp2 to enhance hematopoietic stem cell emergence,PRJNA578896,Other,In this study we examine the role of RIG I like receptors RLRs in hematopoietic stem and progenitor cell formation. We have performed extensive expression analysis and chromatin accessibility assays on endothelial and hemogenic endothelial cells in knockdown animals for all the RLR receptors. Additionally we did expression analysis on animals with knockdown of two receptors. Finally we examined the upregulation of repetitive elements in hemogenic endothelial cells post treatment with valproic acid VPA or decitabine.,,,,,danRer10 raw data,,strain:AB/tu|age:not applicable|sex:pooled male and female|tissue:endothelial and hemogenic endothelial|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq control for double morphants endothelial hemogenic endothelial cell 26hpf replicate 1,13,13,TruSeq stranded mRNA,,,RNA-Seq,TRANSCRIPTOMIC,size fractionation,PAIRED,ILLUMINA,Illumina HiSeq 3000,,SRP226614,,,RNA_seq control for double morphants endothelial_hemogenic endothelial cell 26hpf replicate 1_R1.fastq.gz RNA_seq control for double morphants endothelial_hemogenic endothelial cell 26hpf replicate 1_R2.fastq.gz,fastq fastq,1909021350.0,12726809.0,RNA seq control for double morphants endothelial hemogenic endothelial cell 26hpf replicate 1 R1.fastq.gz,0:75 1:75,A:536542827;C:420010389;G:423642042;T:528630203;N:195889,75,75,,,536542827,420010389,423642042,528630203,195889,SRX7034687,SRS5554730,SRA983011,"Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany|Department of Cellular and Molecular Immunology","Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany",2,0.91535,0.91534,0.11578,0.11457,0.73705,0.74373,0.47609,0.47115,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,size_fractionation,trueseq,bulk,unknown,unknown,,Germany,2019-10-24,Pharyngula,Embryo,Endothelium,Cardiovascular System
55399,SRR10323911,SRX7034686,SRS5554730,SRP226614,PRJNA578896,Repetitive elements engage Rig I and Mda5 in interplay with Lgp2 to enhance hematopoietic stem cell emergence,PRJNA578896,Other,In this study we examine the role of RIG I like receptors RLRs in hematopoietic stem and progenitor cell formation. We have performed extensive expression analysis and chromatin accessibility assays on endothelial and hemogenic endothelial cells in knockdown animals for all the RLR receptors. Additionally we did expression analysis on animals with knockdown of two receptors. Finally we examined the upregulation of repetitive elements in hemogenic endothelial cells post treatment with valproic acid VPA or decitabine.,,,,,danRer10 raw data,,strain:AB/tu|age:not applicable|sex:pooled male and female|tissue:endothelial and hemogenic endothelial|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq  lgp2 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 2,12,12,NEBNext Low Input RNA Library Prep Kit,,,RNA-Seq,TRANSCRIPTOMIC,size fractionation,PAIRED,ILLUMINA,Illumina HiSeq 3000,,SRP226614,,,RNA_seq lgp2 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 2_R1.fastq.gz RNA_seq lgp2 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 2_R2.fastq.gz,fastq fastq,5135290500.0,34235270.0,RNA seq lgp2 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 2 R1.fastq.gz,0:75 1:75,A:1339180940;C:1202946694;G:1230552771;T:1362120185;N:489910,75,75,,,1339180940,1202946694,1230552771,1362120185,489910,SRX7034686,SRS5554730,SRA983011,"Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany|Department of Cellular and Molecular Immunology","Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany",2,0.66031,0.70687,0.04575,0.04896,0.81075,0.81195,0.50951,0.47552,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,size_fractionation,nebnext,bulk,unknown,unknown,,Germany,2019-10-24,Pharyngula,Embryo,Endothelium,Cardiovascular System
55400,SRR10323912,SRX7034685,SRS5554730,SRP226614,PRJNA578896,Repetitive elements engage Rig I and Mda5 in interplay with Lgp2 to enhance hematopoietic stem cell emergence,PRJNA578896,Other,In this study we examine the role of RIG I like receptors RLRs in hematopoietic stem and progenitor cell formation. We have performed extensive expression analysis and chromatin accessibility assays on endothelial and hemogenic endothelial cells in knockdown animals for all the RLR receptors. Additionally we did expression analysis on animals with knockdown of two receptors. Finally we examined the upregulation of repetitive elements in hemogenic endothelial cells post treatment with valproic acid VPA or decitabine.,,,,,danRer10 raw data,,strain:AB/tu|age:not applicable|sex:pooled male and female|tissue:endothelial and hemogenic endothelial|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq  lgp2 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 1,11,11,NEBNext Low Input RNA Library Prep Kit,,,RNA-Seq,TRANSCRIPTOMIC,size fractionation,PAIRED,ILLUMINA,Illumina HiSeq 3000,,SRP226614,,,RNA_seq lgp2 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 1_R1.fastq.gz RNA_seq lgp2 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 1_R2.fastq.gz,fastq fastq,3890046300.0,25933642.0,RNA seq lgp2 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 1 R1.fastq.gz,0:75 1:75,A:1020376762;C:903218301;G:916043426;T:1050047618;N:360193,75,75,,,1020376762,903218301,916043426,1050047618,360193,SRX7034685,SRS5554730,SRA983011,"Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany|Department of Cellular and Molecular Immunology","Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany",2,0.70733,0.75223,0.05929,0.06271,0.80807,0.81071,0.48475,0.49323,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,size_fractionation,nebnext,bulk,unknown,unknown,,Germany,2019-10-24,Pharyngula,Embryo,Endothelium,Cardiovascular System
55401,SRR10323913,SRX7034684,SRS5554730,SRP226614,PRJNA578896,Repetitive elements engage Rig I and Mda5 in interplay with Lgp2 to enhance hematopoietic stem cell emergence,PRJNA578896,Other,In this study we examine the role of RIG I like receptors RLRs in hematopoietic stem and progenitor cell formation. We have performed extensive expression analysis and chromatin accessibility assays on endothelial and hemogenic endothelial cells in knockdown animals for all the RLR receptors. Additionally we did expression analysis on animals with knockdown of two receptors. Finally we examined the upregulation of repetitive elements in hemogenic endothelial cells post treatment with valproic acid VPA or decitabine.,,,,,danRer10 raw data,,strain:AB/tu|age:not applicable|sex:pooled male and female|tissue:endothelial and hemogenic endothelial|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq control for rig 1 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 2,2,2,NEBNext Low Input RNA Library Prep Kit,,,RNA-Seq,TRANSCRIPTOMIC,size fractionation,PAIRED,ILLUMINA,Illumina HiSeq 3000,,SRP226614,,,RNA_seq control for rig_1 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 2_R1.fastq.gz RNA_seq control for rig_1 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 2_R2.fastq.gz,fastq fastq,2547796350.0,16985309.0,RNA seq control for rig 1 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 2 R1.fastq.gz,0:75 1:75,A:686259539;C:560800822;G:567842650;T:732652800;N:240539,75,75,,,686259539,560800822,567842650,732652800,240539,SRX7034684,SRS5554730,SRA983011,"Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany|Department of Cellular and Molecular Immunology","Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany",2,0.70188,0.75886,0.08072,0.08833,0.8034,0.80649,0.51507,0.5194,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,size_fractionation,nebnext,bulk,unknown,unknown,,Germany,2019-10-24,Pharyngula,Embryo,Endothelium,Cardiovascular System
55402,SRR10323914,SRX7034683,SRS5554730,SRP226614,PRJNA578896,Repetitive elements engage Rig I and Mda5 in interplay with Lgp2 to enhance hematopoietic stem cell emergence,PRJNA578896,Other,In this study we examine the role of RIG I like receptors RLRs in hematopoietic stem and progenitor cell formation. We have performed extensive expression analysis and chromatin accessibility assays on endothelial and hemogenic endothelial cells in knockdown animals for all the RLR receptors. Additionally we did expression analysis on animals with knockdown of two receptors. Finally we examined the upregulation of repetitive elements in hemogenic endothelial cells post treatment with valproic acid VPA or decitabine.,,,,,danRer10 raw data,,strain:AB/tu|age:not applicable|sex:pooled male and female|tissue:endothelial and hemogenic endothelial|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq control for rig 1 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 1,1,1,NEBNext Low Input RNA Library Prep Kit,,,RNA-Seq,TRANSCRIPTOMIC,size fractionation,PAIRED,ILLUMINA,Illumina HiSeq 3000,,SRP226614,,,RNA_seq control for rig_1 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 1_R1.fastq.gz RNA_seq control for rig_1 morpholino injected endothelial_hemogenic endothelial cell 26hpf replicate 1_R2.fastq.gz,fastq fastq,2438070600.0,16253804.0,RNA seq control for rig 1 morpholino injected endothelial hemogenic endothelial cell 26hpf replicate 1 R1.fastq.gz,0:75 1:75,A:654282012;C:534555119;G:543878428;T:705130425;N:224616,75,75,,,654282012,534555119,543878428,705130425,224616,SRX7034683,SRS5554730,SRA983011,"Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany|Department of Cellular and Molecular Immunology","Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany",2,0.69336,0.75626,0.09168,0.09896,0.80166,0.80253,0.51795,0.52538,75,75,B,B,biological fallback assumption,illumina,hiseq_era,unknown,size_fractionation,nebnext,bulk,unknown,unknown,,Germany,2019-10-24,Pharyngula,Embryo,Endothelium,Cardiovascular System