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 62931,SRR13447020,SRX9860256,SRS8040687,SRP301982,PRJNA692493,Localized EMT reprograms glial progenitors to promote spinal cord repair [bulk RNA seq],GSE164943,Transcriptome Analysis,mCherry/EGFP double positive cells were isolated from the spinal cords of Tgctgfa:mCherry; gfap:EGFP zebrafish at 5 xxx post injury. Bulk spinal cord tissue at 5 10 and 21 xxx post injury were also sequenced. Overall design: Whole RNA sequencing of FACS sorted ctgfa:mCherry; gfap:EGFP cells and bulk spinal cord tissue.,parent bioproject:PRJNA692492,pubmed:33609461,,Z 14 3 wpi sc 2,GSM5023609,,source name:21 xxx post injury dpi whole bulk spinal cord|tissue:bulk spinal cord|timepoint:21 xxx post injury,Z 14 3 wpi sc 2,Quality control and trimming of adapters and short sequences using Fastx Sequence reads mapped to the zebrafish genome Zv11 using Bowtie2 Sequence reads assembled and quantified using Cufflinks and Cuffdiff algorithms Genome build: Zv11,21 xxx post injury dpi whole bulk spinal cord,Adult zebrafish were subjected to complete spinal cord transection or sham injured control.,For FACS seq animals were lesioned and dissociated to set up FACS gates. Tissues were dissociated using 0.05% trypsin for 5 min at room temperature. Cell supernatants were triturated in DMEM with 20% fetal bovine serum and applied to a 100 um cell strainer. Dissociated cells were pelleted resuspended and sorter using a MoFlo cell sorter machine. Total RNA was prepared using a NucleoSpin RNA Plus XS kit according to manufacturer's specifications. TruSeq libraries were prepared and sequenced on Illumina HiSeq 3000 using 50 bp single end reads,,tissue:bulk spinal cord|timepoint:21 xxx post injury,GSM5023609,GSM5023609: Z 14 3 wpi sc 2; Danio rerio; RNA Seq,GSM5023609,,1,For FACS seq animals were lesioned and dissociated to set up FACS gates. Tissues were dissociated using 0.05% trypsin for 5 min at room temperature. Cell supernatants were triturated in DMEM with 20% fetal bovine serum and applied to a 100 um cell strainer. Dissociated cells were pelleted resuspended and sorter using a MoFlo cell sorter machine. Total RNA was prepared using a NucleoSpin RNA Plus XS kit according to manufacturer's specifications. TruSeq libraries were prepared and sequenced on Illumina HiSeq 3000 using 50 bp single end reads,GEO Accession:GSM5023609,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,Illumina HiSeq 3000,,SRP301982,,,run_2941_s_5_withindex_sequence.txt_GGTTTCG.fq.gz,fastq,1344754850.0,26895097.0,GSM5023609 r1,0:50 1:0,A:368949168;C:303436511;G:303863091;T:368250015;N:256065,50,0,,,368949168,303436511,303863091,368250015,256065,SRX9860256,SRS8040687,SRA1184552,GEO,"Developmental Biology, Washington University",1,0.90723,,0.15091,,0.70701,,0.50468,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,bulk,bulk,,United States,2021-01-15,Adult,Adult,Spinal Cord,Nervous System 62932,SRR13447019,SRX9860255,SRS8040686,SRP301982,PRJNA692493,Localized EMT reprograms glial progenitors to promote spinal cord repair [bulk RNA seq],GSE164943,Transcriptome Analysis,mCherry/EGFP double positive cells were isolated from the spinal cords of Tgctgfa:mCherry; gfap:EGFP zebrafish at 5 xxx post injury. Bulk spinal cord tissue at 5 10 and 21 xxx post injury were also sequenced. Overall design: Whole RNA sequencing of FACS sorted ctgfa:mCherry; gfap:EGFP cells and bulk spinal cord tissue.,parent bioproject:PRJNA692492,pubmed:33609461,,Z 10 3 wpi sc 1,GSM5023608,,source name:21 xxx post injury dpi whole bulk spinal cord|tissue:bulk spinal cord|timepoint:21 xxx post injury,Z 10 3 wpi sc 1,Quality control and trimming of adapters and short sequences using Fastx Sequence reads mapped to the zebrafish genome Zv11 using Bowtie2 Sequence reads assembled and quantified using Cufflinks and Cuffdiff algorithms Genome build: Zv11,21 xxx post injury dpi whole bulk spinal cord,Adult zebrafish were subjected to complete spinal cord transection or sham injured control.,For FACS seq animals were lesioned and dissociated to set up FACS gates. Tissues were dissociated using 0.05% trypsin for 5 min at room temperature. Cell supernatants were triturated in DMEM with 20% fetal bovine serum and applied to a 100 um cell strainer. Dissociated cells were pelleted resuspended and sorter using a MoFlo cell sorter machine. Total RNA was prepared using a NucleoSpin RNA Plus XS kit according to manufacturer's specifications. TruSeq libraries were prepared and sequenced on Illumina HiSeq 3000 using 50 bp single end reads,,tissue:bulk spinal cord|timepoint:21 xxx post injury,GSM5023608,GSM5023608: Z 10 3 wpi sc 1; Danio rerio; RNA Seq,GSM5023608,,1,For FACS seq animals were lesioned and dissociated to set up FACS gates. Tissues were dissociated using 0.05% trypsin for 5 min at room temperature. Cell supernatants were triturated in DMEM with 20% fetal bovine serum and applied to a 100 um cell strainer. Dissociated cells were pelleted resuspended and sorter using a MoFlo cell sorter machine. Total RNA was prepared using a NucleoSpin RNA Plus XS kit according to manufacturer's specifications. TruSeq libraries were prepared and sequenced on Illumina HiSeq 3000 using 50 bp single end reads,GEO Accession:GSM5023608,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,Illumina HiSeq 3000,,SRP301982,,,run_2941_s_5_withindex_sequence.txt_GACCGAA.fq.gz,fastq,1479770950.0,29595419.0,GSM5023608 r1,0:50 1:0,A:405566463;C:336370965;G:334352978;T:403198702;N:281842,50,0,,,405566463,336370965,334352978,403198702,281842,SRX9860255,SRS8040686,SRA1184552,GEO,"Developmental Biology, Washington University",1,0.90956,,0.14428,,0.70666,,0.40811,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,bulk,bulk,,United States,2021-01-15,Adult,Adult,Spinal Cord,Nervous System 62933,SRR13447018,SRX9860254,SRS8040685,SRP301982,PRJNA692493,Localized EMT reprograms glial progenitors to promote spinal cord repair [bulk RNA seq],GSE164943,Transcriptome Analysis,mCherry/EGFP double positive cells were isolated from the spinal cords of Tgctgfa:mCherry; gfap:EGFP zebrafish at 5 xxx post injury. Bulk spinal cord tissue at 5 10 and 21 xxx post injury were also sequenced. Overall design: Whole RNA sequencing of FACS sorted ctgfa:mCherry; gfap:EGFP cells and bulk spinal cord tissue.,parent bioproject:PRJNA692492,pubmed:33609461,,Z 13 10 dpi sc 2,GSM5023607,,source name:10 xxx post injury dpi whole bulk spinal cord|tissue:bulk spinal cord|timepoint:10 xxx post injury,Z 13 10 dpi sc 2,Quality control and trimming of adapters and short sequences using Fastx Sequence reads mapped to the zebrafish genome Zv11 using Bowtie2 Sequence reads assembled and quantified using Cufflinks and Cuffdiff algorithms Genome build: Zv11,10 xxx post injury dpi whole bulk spinal cord,Adult zebrafish were subjected to complete spinal cord transection or sham injured control.,For FACS seq animals were lesioned and dissociated to set up FACS gates. Tissues were dissociated using 0.05% trypsin for 5 min at room temperature. Cell supernatants were triturated in DMEM with 20% fetal bovine serum and applied to a 100 um cell strainer. Dissociated cells were pelleted resuspended and sorter using a MoFlo cell sorter machine. Total RNA was prepared using a NucleoSpin RNA Plus XS kit according to manufacturer's specifications. TruSeq libraries were prepared and sequenced on Illumina HiSeq 3000 using 50 bp single end reads,,tissue:bulk spinal cord|timepoint:10 xxx post injury,GSM5023607,GSM5023607: Z 13 10 dpi sc 2; Danio rerio; RNA Seq,GSM5023607,,1,For FACS seq animals were lesioned and dissociated to set up FACS gates. Tissues were dissociated using 0.05% trypsin for 5 min at room temperature. Cell supernatants were triturated in DMEM with 20% fetal bovine serum and applied to a 100 um cell strainer. Dissociated cells were pelleted resuspended and sorter using a MoFlo cell sorter machine. Total RNA was prepared using a NucleoSpin RNA Plus XS kit according to manufacturer's specifications. TruSeq libraries were prepared and sequenced on Illumina HiSeq 3000 using 50 bp single end reads,GEO Accession:GSM5023607,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,Illumina HiSeq 3000,,SRP301982,,,run_2941_s_5_withindex_sequence.txt_TTACCGT.fq.gz,fastq,2001230650.0,40024613.0,GSM5023607 r1,0:50 1:0,A:563937717;C:433011935;G:427243197;T:576659283;N:378518,50,0,,,563937717,433011935,427243197,576659283,378518,SRX9860254,SRS8040685,SRA1184552,GEO,"Developmental Biology, Washington University",1,0.88738,,0.25515,,0.74576,,0.61121,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,bulk,bulk,,United States,2021-01-15,Adult,Adult,Spinal Cord,Nervous System 62934,SRR13447017,SRX9860253,SRS8040684,SRP301982,PRJNA692493,Localized EMT reprograms glial progenitors to promote spinal cord repair [bulk RNA seq],GSE164943,Transcriptome Analysis,mCherry/EGFP double positive cells were isolated from the spinal cords of Tgctgfa:mCherry; gfap:EGFP zebrafish at 5 xxx post injury. Bulk spinal cord tissue at 5 10 and 21 xxx post injury were also sequenced. Overall design: Whole RNA sequencing of FACS sorted ctgfa:mCherry; gfap:EGFP cells and bulk spinal cord tissue.,parent bioproject:PRJNA692492,pubmed:33609461,,Z 9 10 dpi sc 1,GSM5023606,,source name:10 xxx post injury dpi whole bulk spinal cord|tissue:bulk spinal cord|timepoint:10 xxx post injury,Z 9 10 dpi sc 1,Quality control and trimming of adapters and short sequences using Fastx Sequence reads mapped to the zebrafish genome Zv11 using Bowtie2 Sequence reads assembled and quantified using Cufflinks and Cuffdiff algorithms Genome build: Zv11,10 xxx post injury dpi whole bulk spinal cord,Adult zebrafish were subjected to complete spinal cord transection or sham injured control.,For FACS seq animals were lesioned and dissociated to set up FACS gates. Tissues were dissociated using 0.05% trypsin for 5 min at room temperature. Cell supernatants were triturated in DMEM with 20% fetal bovine serum and applied to a 100 um cell strainer. Dissociated cells were pelleted resuspended and sorter using a MoFlo cell sorter machine. Total RNA was prepared using a NucleoSpin RNA Plus XS kit according to manufacturer's specifications. TruSeq libraries were prepared and sequenced on Illumina HiSeq 3000 using 50 bp single end reads,,tissue:bulk spinal cord|timepoint:10 xxx post injury,GSM5023606,GSM5023606: Z 9 10 dpi sc 1; Danio rerio; RNA Seq,GSM5023606,,1,For FACS seq animals were lesioned and dissociated to set up FACS gates. Tissues were dissociated using 0.05% trypsin for 5 min at room temperature. Cell supernatants were triturated in DMEM with 20% fetal bovine serum and applied to a 100 um cell strainer. Dissociated cells were pelleted resuspended and sorter using a MoFlo cell sorter machine. Total RNA was prepared using a NucleoSpin RNA Plus XS kit according to manufacturer's specifications. TruSeq libraries were prepared and sequenced on Illumina HiSeq 3000 using 50 bp single end reads,GEO Accession:GSM5023606,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,Illumina HiSeq 3000,,SRP301982,,,run_2941_s_5_withindex_sequence.txt_TAGGATG.fq.gz,fastq,1228530350.0,24570607.0,GSM5023606 r1,0:50 1:0,A:336797190;C:276687423;G:274112310;T:340700127;N:233300,50,0,,,336797190,276687423,274112310,340700127,233300,SRX9860253,SRS8040684,SRA1184552,GEO,"Developmental Biology, Washington University",1,0.90494,,0.17991,,0.69789,,0.43663,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,bulk,bulk,,United States,2021-01-15,Adult,Adult,Spinal Cord,Nervous System 62935,SRR13447016,SRX9860252,SRS8040683,SRP301982,PRJNA692493,Localized EMT reprograms glial progenitors to promote spinal cord repair [bulk RNA seq],GSE164943,Transcriptome Analysis,mCherry/EGFP double positive cells were isolated from the spinal cords of Tgctgfa:mCherry; gfap:EGFP zebrafish at 5 xxx post injury. Bulk spinal cord tissue at 5 10 and 21 xxx post injury were also sequenced. Overall design: Whole RNA sequencing of FACS sorted ctgfa:mCherry; gfap:EGFP cells and bulk spinal cord tissue.,parent bioproject:PRJNA692492,pubmed:33609461,,Z 12 5 dpi sc 2,GSM5023605,,source name:5 xxx post injury dpi whole bulk spinal cord|tissue:bulk spinal cord|timepoint:5 xxx post injury,Z 12 5 dpi sc 2,Quality control and trimming of adapters and short sequences using Fastx Sequence reads mapped to the zebrafish genome Zv11 using Bowtie2 Sequence reads assembled and quantified using Cufflinks and Cuffdiff algorithms Genome build: Zv11,5 xxx post injury dpi whole bulk spinal cord,Adult zebrafish were subjected to complete spinal cord transection or sham injured control.,For FACS seq animals were lesioned and dissociated to set up FACS gates. Tissues were dissociated using 0.05% trypsin for 5 min at room temperature. Cell supernatants were triturated in DMEM with 20% fetal bovine serum and applied to a 100 um cell strainer. Dissociated cells were pelleted resuspended and sorter using a MoFlo cell sorter machine. Total RNA was prepared using a NucleoSpin RNA Plus XS kit according to manufacturer's specifications. TruSeq libraries were prepared and sequenced on Illumina HiSeq 3000 using 50 bp single end reads,,tissue:bulk spinal cord|timepoint:5 xxx post injury,GSM5023605,GSM5023605: Z 12 5 dpi sc 2; Danio rerio; RNA Seq,GSM5023605,,1,For FACS seq animals were lesioned and dissociated to set up FACS gates. Tissues were dissociated using 0.05% trypsin for 5 min at room temperature. Cell supernatants were triturated in DMEM with 20% fetal bovine serum and applied to a 100 um cell strainer. Dissociated cells were pelleted resuspended and sorter using a MoFlo cell sorter machine. Total RNA was prepared using a NucleoSpin RNA Plus XS kit according to manufacturer's specifications. TruSeq libraries were prepared and sequenced on Illumina HiSeq 3000 using 50 bp single end reads,GEO Accession:GSM5023605,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,Illumina HiSeq 3000,,SRP301982,,,run_2941_s_5_withindex_sequence.txt_CGCCGTA.fq.gz,fastq,1304617300.0,26092346.0,GSM5023605 r1,0:50 1:0,A:354720856;C:300934683;G:299416035;T:349298501;N:247225,50,0,,,354720856,300934683,299416035,349298501,247225,SRX9860252,SRS8040683,SRA1184552,GEO,"Developmental Biology, Washington University",1,0.91217,,0.12965,,0.69609,,0.45367,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,bulk,bulk,,United States,2021-01-15,Adult,Adult,Spinal Cord,Nervous System 62936,SRR13447015,SRX9860251,SRS8040682,SRP301982,PRJNA692493,Localized EMT reprograms glial progenitors to promote spinal cord repair [bulk RNA seq],GSE164943,Transcriptome Analysis,mCherry/EGFP double positive cells were isolated from the spinal cords of Tgctgfa:mCherry; gfap:EGFP zebrafish at 5 xxx post injury. Bulk spinal cord tissue at 5 10 and 21 xxx post injury were also sequenced. Overall design: Whole RNA sequencing of FACS sorted ctgfa:mCherry; gfap:EGFP cells and bulk spinal cord tissue.,parent bioproject:PRJNA692492,pubmed:33609461,,Z 8 5 dpi sc 1,GSM5023604,,source name:5 xxx post injury dpi whole bulk spinal cord|tissue:bulk spinal cord|timepoint:5 xxx post injury,Z 8 5 dpi sc 1,Quality control and trimming of adapters and short sequences using Fastx Sequence reads mapped to the zebrafish genome Zv11 using Bowtie2 Sequence reads assembled and quantified using Cufflinks and Cuffdiff algorithms Genome build: Zv11,5 xxx post injury dpi whole bulk spinal cord,Adult zebrafish were subjected to complete spinal cord transection or sham injured control.,For FACS seq animals were lesioned and dissociated to set up FACS gates. Tissues were dissociated using 0.05% trypsin for 5 min at room temperature. Cell supernatants were triturated in DMEM with 20% fetal bovine serum and applied to a 100 um cell strainer. Dissociated cells were pelleted resuspended and sorter using a MoFlo cell sorter machine. Total RNA was prepared using a NucleoSpin RNA Plus XS kit according to manufacturer's specifications. TruSeq libraries were prepared and sequenced on Illumina HiSeq 3000 using 50 bp single end reads,,tissue:bulk spinal cord|timepoint:5 xxx post injury,GSM5023604,GSM5023604: Z 8 5 dpi sc 1; Danio rerio; RNA Seq,GSM5023604,,1,For FACS seq animals were lesioned and dissociated to set up FACS gates. Tissues were dissociated using 0.05% trypsin for 5 min at room temperature. Cell supernatants were triturated in DMEM with 20% fetal bovine serum and applied to a 100 um cell strainer. Dissociated cells were pelleted resuspended and sorter using a MoFlo cell sorter machine. Total RNA was prepared using a NucleoSpin RNA Plus XS kit according to manufacturer's specifications. TruSeq libraries were prepared and sequenced on Illumina HiSeq 3000 using 50 bp single end reads,GEO Accession:GSM5023604,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,Illumina HiSeq 3000,,SRP301982,,,run_2941_s_5_withindex_sequence.txt_CATACTG.fq.gz,fastq,1396287400.0,27925748.0,GSM5023604 r1,0:50 1:0,A:377321251;C:319668467;G:314347283;T:384684913;N:265486,50,0,,,377321251,319668467,314347283,384684913,265486,SRX9860251,SRS8040682,SRA1184552,GEO,"Developmental Biology, Washington University",1,0.91125,,0.14506,,0.69777,,0.4557,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,bulk,bulk,,United States,2021-01-15,Adult,Adult,Spinal Cord,Nervous System 62937,SRR13447014,SRX9860250,SRS8040681,SRP301982,PRJNA692493,Localized EMT reprograms glial progenitors to promote spinal cord repair [bulk RNA seq],GSE164943,Transcriptome Analysis,mCherry/EGFP double positive cells were isolated from the spinal cords of Tgctgfa:mCherry; gfap:EGFP zebrafish at 5 xxx post injury. Bulk spinal cord tissue at 5 10 and 21 xxx post injury were also sequenced. Overall design: Whole RNA sequencing of FACS sorted ctgfa:mCherry; gfap:EGFP cells and bulk spinal cord tissue.,parent bioproject:PRJNA692492,pubmed:33609461,,Z 11 uninjured sc 2,GSM5023603,,source name:Bulk uninjured spinal cord|tissue:bulk spinal cord|timepoint:Uninjured,Z 11 uninjured sc 2,Quality control and trimming of adapters and short sequences using Fastx Sequence reads mapped to the zebrafish genome Zv11 using Bowtie2 Sequence reads assembled and quantified using Cufflinks and Cuffdiff algorithms Genome build: Zv11,Bulk uninjured spinal cord,Adult zebrafish were subjected to complete spinal cord transection or sham injured control.,For FACS seq animals were lesioned and dissociated to set up FACS gates. Tissues were dissociated using 0.05% trypsin for 5 min at room temperature. Cell supernatants were triturated in DMEM with 20% fetal bovine serum and applied to a 100 um cell strainer. Dissociated cells were pelleted resuspended and sorter using a MoFlo cell sorter machine. Total RNA was prepared using a NucleoSpin RNA Plus XS kit according to manufacturer's specifications. TruSeq libraries were prepared and sequenced on Illumina HiSeq 3000 using 50 bp single end reads,,tissue:bulk spinal cord|timepoint:Uninjured,GSM5023603,GSM5023603: Z 11 uninjured sc 2; Danio rerio; RNA Seq,GSM5023603,,1,For FACS seq animals were lesioned and dissociated to set up FACS gates. Tissues were dissociated using 0.05% trypsin for 5 min at room temperature. Cell supernatants were triturated in DMEM with 20% fetal bovine serum and applied to a 100 um cell strainer. Dissociated cells were pelleted resuspended and sorter using a MoFlo cell sorter machine. Total RNA was prepared using a NucleoSpin RNA Plus XS kit according to manufacturer's specifications. TruSeq libraries were prepared and sequenced on Illumina HiSeq 3000 using 50 bp single end reads,GEO Accession:GSM5023603,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,Illumina HiSeq 3000,,SRP301982,,,run_2941_s_5_withindex_sequence.txt_CGTGATA.fq.gz,fastq,1422401500.0,28448030.0,GSM5023603 r1,0:50 1:0,A:383424800;C:325837613;G:322858241;T:390009650;N:271196,50,0,,,383424800,325837613,322858241,390009650,271196,SRX9860250,SRS8040681,SRA1184552,GEO,"Developmental Biology, Washington University",1,0.918,,0.1183,,0.7163,,0.50669,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,bulk,bulk,,United States,2021-01-15,Adult,Adult,Spinal Cord,Nervous System 62938,SRR13447013,SRX9860249,SRS8040680,SRP301982,PRJNA692493,Localized EMT reprograms glial progenitors to promote spinal cord repair [bulk RNA seq],GSE164943,Transcriptome Analysis,mCherry/EGFP double positive cells were isolated from the spinal cords of Tgctgfa:mCherry; gfap:EGFP zebrafish at 5 xxx post injury. Bulk spinal cord tissue at 5 10 and 21 xxx post injury were also sequenced. Overall design: Whole RNA sequencing of FACS sorted ctgfa:mCherry; gfap:EGFP cells and bulk spinal cord tissue.,parent bioproject:PRJNA692492,pubmed:33609461,,Z 7 uninjured sc 1,GSM5023602,,source name:Bulk uninjured spinal cord|tissue:bulk spinal cord|timepoint:Uninjured,Z 7 uninjured sc 1,Quality control and trimming of adapters and short sequences using Fastx Sequence reads mapped to the zebrafish genome Zv11 using Bowtie2 Sequence reads assembled and quantified using Cufflinks and Cuffdiff algorithms Genome build: Zv11,Bulk uninjured spinal cord,Adult zebrafish were subjected to complete spinal cord transection or sham injured control.,For FACS seq animals were lesioned and dissociated to set up FACS gates. Tissues were dissociated using 0.05% trypsin for 5 min at room temperature. Cell supernatants were triturated in DMEM with 20% fetal bovine serum and applied to a 100 um cell strainer. Dissociated cells were pelleted resuspended and sorter using a MoFlo cell sorter machine. Total RNA was prepared using a NucleoSpin RNA Plus XS kit according to manufacturer's specifications. TruSeq libraries were prepared and sequenced on Illumina HiSeq 3000 using 50 bp single end reads,,tissue:bulk spinal cord|timepoint:Uninjured,GSM5023602,GSM5023602: Z 7 uninjured sc 1; Danio rerio; RNA Seq,GSM5023602,,1,For FACS seq animals were lesioned and dissociated to set up FACS gates. Tissues were dissociated using 0.05% trypsin for 5 min at room temperature. Cell supernatants were triturated in DMEM with 20% fetal bovine serum and applied to a 100 um cell strainer. Dissociated cells were pelleted resuspended and sorter using a MoFlo cell sorter machine. Total RNA was prepared using a NucleoSpin RNA Plus XS kit according to manufacturer's specifications. TruSeq libraries were prepared and sequenced on Illumina HiSeq 3000 using 50 bp single end reads,GEO Accession:GSM5023602,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,Illumina HiSeq 3000,,SRP301982,,,run_2941_s_5_withindex_sequence.txt_CCCGCTA.fq.gz,fastq,1274023900.0,25480478.0,GSM5023602 r1,0:50 1:0,A:330443270;C:305732881;G:301431401;T:336172878;N:243470,50,0,,,330443270,305732881,301431401,336172878,243470,SRX9860249,SRS8040680,SRA1184552,GEO,"Developmental Biology, Washington University",1,0.92713,,0.09501,,0.71776,,0.49328,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,bulk,bulk,,United States,2021-01-15,Adult,Adult,Spinal Cord,Nervous System 62939,SRR13447012,SRX9860248,SRS8040679,SRP301982,PRJNA692493,Localized EMT reprograms glial progenitors to promote spinal cord repair [bulk RNA seq],GSE164943,Transcriptome Analysis,mCherry/EGFP double positive cells were isolated from the spinal cords of Tgctgfa:mCherry; gfap:EGFP zebrafish at 5 xxx post injury. Bulk spinal cord tissue at 5 10 and 21 xxx post injury were also sequenced. Overall design: Whole RNA sequencing of FACS sorted ctgfa:mCherry; gfap:EGFP cells and bulk spinal cord tissue.,parent bioproject:PRJNA692492,pubmed:33609461,,Z 3 gp rp rna 1,GSM5023601,,source name:FACS sorted ctgfa:mCherry;gfap:EGFP cells|tissue:ctgfa:mCherry;gfap:EGFP cells|timepoint:5 xxx post injury,Z 3 gp rp rna 1,Quality control and trimming of adapters and short sequences using Fastx Sequence reads mapped to the zebrafish genome Zv11 using Bowtie2 Sequence reads assembled and quantified using Cufflinks and Cuffdiff algorithms Genome build: Zv11,FACS sorted ctgfa:mCherry;gfap:EGFP cells,Adult zebrafish were subjected to complete spinal cord transection or sham injured control.,For FACS seq animals were lesioned and dissociated to set up FACS gates. Tissues were dissociated using 0.05% trypsin for 5 min at room temperature. Cell supernatants were triturated in DMEM with 20% fetal bovine serum and applied to a 100 um cell strainer. Dissociated cells were pelleted resuspended and sorter using a MoFlo cell sorter machine. Total RNA was prepared using a NucleoSpin RNA Plus XS kit according to manufacturer's specifications. TruSeq libraries were prepared and sequenced on Illumina HiSeq 3000 using 50 bp single end reads,,tissue:ctgfa:mCherry;gfap:EGFP cells|timepoint:5 xxx post injury,GSM5023601,GSM5023601: Z 3 gp rp rna 1; Danio rerio; RNA Seq,GSM5023601,,1,For FACS seq animals were lesioned and dissociated to set up FACS gates. Tissues were dissociated using 0.05% trypsin for 5 min at room temperature. Cell supernatants were triturated in DMEM with 20% fetal bovine serum and applied to a 100 um cell strainer. Dissociated cells were pelleted resuspended and sorter using a MoFlo cell sorter machine. Total RNA was prepared using a NucleoSpin RNA Plus XS kit according to manufacturer's specifications. TruSeq libraries were prepared and sequenced on Illumina HiSeq 3000 using 50 bp single end reads,GEO Accession:GSM5023601,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,Illumina HiSeq 3000,,SRP301982,,,run_2941_s_5_withindex_sequence.txt_ATAGGCT.fq.gz,fastq,1480993150.0,29619863.0,GSM5023601 r1,0:50 1:0,A:407241408;C:335585510;G:332782981;T:405104683;N:278568,50,0,,,407241408,335585510,332782981,405104683,278568,SRX9860248,SRS8040679,SRA1184552,GEO,"Developmental Biology, Washington University",1,0.90012,,0.13909,,0.75684,,0.59867,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,bulk,bulk,,United States,2021-01-15,Adult,Adult,Spinal Cord,Nervous System 62940,SRR13447011,SRX9860247,SRS8040678,SRP301982,PRJNA692493,Localized EMT reprograms glial progenitors to promote spinal cord repair [bulk RNA seq],GSE164943,Transcriptome Analysis,mCherry/EGFP double positive cells were isolated from the spinal cords of Tgctgfa:mCherry; gfap:EGFP zebrafish at 5 xxx post injury. Bulk spinal cord tissue at 5 10 and 21 xxx post injury were also sequenced. Overall design: Whole RNA sequencing of FACS sorted ctgfa:mCherry; gfap:EGFP cells and bulk spinal cord tissue.,parent bioproject:PRJNA692492,pubmed:33609461,,Z 18 gp rp 3,GSM5023600,,source name:FACS sorted ctgfa:mCherry;gfap:EGFP cells|tissue:ctgfa:mCherry;gfap:EGFP cells|timepoint:5 xxx post injury,Z 18 gp rp 3,Quality control and trimming of adapters and short sequences using Fastx Sequence reads mapped to the zebrafish genome Zv11 using Bowtie2 Sequence reads assembled and quantified using Cufflinks and Cuffdiff algorithms Genome build: Zv11,FACS sorted ctgfa:mCherry;gfap:EGFP cells,Adult zebrafish were subjected to complete spinal cord transection or sham injured control.,For FACS seq animals were lesioned and dissociated to set up FACS gates. Tissues were dissociated using 0.05% trypsin for 5 min at room temperature. Cell supernatants were triturated in DMEM with 20% fetal bovine serum and applied to a 100 um cell strainer. Dissociated cells were pelleted resuspended and sorter using a MoFlo cell sorter machine. Total RNA was prepared using a NucleoSpin RNA Plus XS kit according to manufacturer's specifications. TruSeq libraries were prepared and sequenced on Illumina HiSeq 3000 using 50 bp single end reads,,tissue:ctgfa:mCherry;gfap:EGFP cells|timepoint:5 xxx post injury,GSM5023600,GSM5023600: Z 18 gp rp 3; Danio rerio; RNA Seq,GSM5023600,,1,For FACS seq animals were lesioned and dissociated to set up FACS gates. Tissues were dissociated using 0.05% trypsin for 5 min at room temperature. Cell supernatants were triturated in DMEM with 20% fetal bovine serum and applied to a 100 um cell strainer. Dissociated cells were pelleted resuspended and sorter using a MoFlo cell sorter machine. Total RNA was prepared using a NucleoSpin RNA Plus XS kit according to manufacturer's specifications. TruSeq libraries were prepared and sequenced on Illumina HiSeq 3000 using 50 bp single end reads,GEO Accession:GSM5023600,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,Illumina HiSeq 3000,,SRP301982,,,run_2941_s_5_withindex_sequence.txt_AATGACT.fq.gz,fastq,1583531750.0,31670635.0,GSM5023600 r1,0:50 1:0,A:429031314;C:366679713;G:363462738;T:424058514;N:299471,50,0,,,429031314,366679713,363462738,424058514,299471,SRX9860247,SRS8040678,SRA1184552,GEO,"Developmental Biology, Washington University",1,0.90969,,0.12671,,0.7458,,0.57895,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,bulk,bulk,,United States,2021-01-15,Adult,Adult,Spinal Cord,Nervous System 62941,SRR13447010,SRX9860246,SRS8040677,SRP301982,PRJNA692493,Localized EMT reprograms glial progenitors to promote spinal cord repair [bulk RNA seq],GSE164943,Transcriptome Analysis,mCherry/EGFP double positive cells were isolated from the spinal cords of Tgctgfa:mCherry; gfap:EGFP zebrafish at 5 xxx post injury. Bulk spinal cord tissue at 5 10 and 21 xxx post injury were also sequenced. Overall design: Whole RNA sequencing of FACS sorted ctgfa:mCherry; gfap:EGFP cells and bulk spinal cord tissue.,parent bioproject:PRJNA692492,pubmed:33609461,,Z 15 gp rp 1,GSM5023599,,source name:FACS sorted ctgfa:mCherry;gfap:EGFP cells|tissue:ctgfa:mCherry;gfap:EGFP cells|timepoint:5 xxx post injury,Z 15 gp rp 1,Quality control and trimming of adapters and short sequences using Fastx Sequence reads mapped to the zebrafish genome Zv11 using Bowtie2 Sequence reads assembled and quantified using Cufflinks and Cuffdiff algorithms Genome build: Zv11,FACS sorted ctgfa:mCherry;gfap:EGFP cells,Adult zebrafish were subjected to complete spinal cord transection or sham injured control.,For FACS seq animals were lesioned and dissociated to set up FACS gates. Tissues were dissociated using 0.05% trypsin for 5 min at room temperature. Cell supernatants were triturated in DMEM with 20% fetal bovine serum and applied to a 100 um cell strainer. Dissociated cells were pelleted resuspended and sorter using a MoFlo cell sorter machine. Total RNA was prepared using a NucleoSpin RNA Plus XS kit according to manufacturer's specifications. TruSeq libraries were prepared and sequenced on Illumina HiSeq 3000 using 50 bp single end reads,,tissue:ctgfa:mCherry;gfap:EGFP cells|timepoint:5 xxx post injury,GSM5023599,GSM5023599: Z 15 gp rp 1; Danio rerio; RNA Seq,GSM5023599,,1,For FACS seq animals were lesioned and dissociated to set up FACS gates. Tissues were dissociated using 0.05% trypsin for 5 min at room temperature. Cell supernatants were triturated in DMEM with 20% fetal bovine serum and applied to a 100 um cell strainer. Dissociated cells were pelleted resuspended and sorter using a MoFlo cell sorter machine. Total RNA was prepared using a NucleoSpin RNA Plus XS kit according to manufacturer's specifications. TruSeq libraries were prepared and sequenced on Illumina HiSeq 3000 using 50 bp single end reads,GEO Accession:GSM5023599,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,ILLUMINA,Illumina HiSeq 3000,,SRP301982,,,run_2941_s_5_withindex_sequence.txt_TTCTTCG.fq.gz,fastq,1324698650.0,26493973.0,GSM5023599 r1,0:50 1:0,A:361437407;C:301526323;G:300125135;T:361356767;N:253018,50,0,,,361437407,301526323,300125135,361356767,253018,SRX9860246,SRS8040677,SRA1184552,GEO,"Developmental Biology, Washington University",1,0.90938,,0.14229,,0.70869,,0.50563,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,bulk,bulk,,United States,2021-01-15,Adult,Adult,Spinal Cord,Nervous System