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 48009,SRR6910782,SRX3858788,SRS3106147,SRP136723,PRJNA447594,RNAseq of regenerating yap mutant zebrafish hearts,GSE112452,Transcriptome Analysis,A Yap knockout zebrafish line was used to observe how loss of Yap affects cardiac regeneration. Overall design: Cryoinjury or sham surgeries were performed on 6 mpf 12 mpf zebrafish ventricles. At 7 xxx post injury whole hearts were collected and RNAseq was performed.,,pubmed:30295714,,zebrafish heart yap sham 3,GSM3070341,,tissue:7 xxx post injury sham yap mutant zebrafish heart replicate 3|injury type:Sham Injured|genotype:yap / ,zebrafish heart yap sham 3,"Primary sequencing data was conducted with a BGISEQ 500 50SE at 20M reads per sample. Raw reads are subjected to quality control QC to determine if a resequencing step is needed. post QC raw reads are filtered into clean reads which are aligned to the reference sequences. ""Dirty"" raw reads are reads which contain the sequence of adaptor high content of unknown bases and low quality reads and are removed before analysis. Bowtie2 was used to map clean reads to reference gene and HISAT used to reference genome. The Fragments Per Kilobase of transcript per Million mapped reads FPKM method is used to calculated expression level. Genome build: GRCz11 Supplementary files format and content: Excel files containing FKPM values for expression levels.",7 xxx post injury sham yap mutant zebrafish heart replicate 3,Zebrafish were anesthetized in 0.02% tricaine. An incision was made through the chest to gain access to the heart. Ventricles were exposed for roughly four seconds to a 0.5mm liquid nitrogen chilled stainless steel probe for cryoinjury or left alone for sham injury,RNA was extracted using Trizol Thermo Fisher Scientific phenol cholorform extraction. RNA quality was determined using an Agilent BioAnalyzer. RNA libraries were prepared for sequencing using the low input poly A BGISEQ 500RSRNASeqTranscriptome protocol.,Zebrafish Danio rerio were maintained at 28.5C on an Aquatic Habitats recirculating filtered water system in reverse osmosis purified water supplemented with Instant Ocean salts 60 mg/l on a 14 h light:10 h dark lighting cycle and fed a standard diet.,injury type:Sham Injured|genotype:yap / ,GSM3070341,GSM3070341: zebrafish heart yap sham 3; Danio rerio; RNA Seq,GSM3070341,,1,RNA was extracted using Trizol Thermo Fisher Scientific phenol cholorform extraction. RNA quality was determined using an Agilent BioAnalyzer. RNA libraries were prepared for sequencing using the low input poly A BGISEQ 500RSRNASeqTranscriptome protocol.,GEO Accession:GSM3070341,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,BGISEQ,BGISEQ-500,,SRP136723,,,170715_I13_CL100028033_L1_HK500ZEBvisRAAFRACPEI-39_1.fq.gz,fastq,951999850.0,19039997.0,GSM3070341 r1,0:50,A:264195948;C:210535284;G:216206679;T:260149711;N:912228,50,,,,264195948,210535284,216206679,260149711,912228,SRX3858788,SRS3106147,SRA675997,GEO,"Brian Link, Cell Biology, Neurobiology, & Anatomy, Medical College of Wisconsin",1,0.94079,,0.07209,,0.77506,,0.57202,,50,,B,,usable mapping rate,bgi,bgi,unknown,poly_a,unknown,bulk,unknown,unknown,,United States,2018-03-28,Undetermined,Adult,Heart,Cardiovascular System 48010,SRR6910781,SRX3858787,SRS3106141,SRP136723,PRJNA447594,RNAseq of regenerating yap mutant zebrafish hearts,GSE112452,Transcriptome Analysis,A Yap knockout zebrafish line was used to observe how loss of Yap affects cardiac regeneration. Overall design: Cryoinjury or sham surgeries were performed on 6 mpf 12 mpf zebrafish ventricles. At 7 xxx post injury whole hearts were collected and RNAseq was performed.,,pubmed:30295714,,zebrafish heart yap sham 2,GSM3070340,,tissue:7 xxx post injury sham yap mutant zebrafish heart replicate 2|injury type:Sham Injured|genotype:yap / ,zebrafish heart yap sham 2,"Primary sequencing data was conducted with a BGISEQ 500 50SE at 20M reads per sample. Raw reads are subjected to quality control QC to determine if a resequencing step is needed. post QC raw reads are filtered into clean reads which are aligned to the reference sequences. ""Dirty"" raw reads are reads which contain the sequence of adaptor high content of unknown bases and low quality reads and are removed before analysis. Bowtie2 was used to map clean reads to reference gene and HISAT used to reference genome. The Fragments Per Kilobase of transcript per Million mapped reads FPKM method is used to calculated expression level. Genome build: GRCz11 Supplementary files format and content: Excel files containing FKPM values for expression levels.",7 xxx post injury sham yap mutant zebrafish heart replicate 2,Zebrafish were anesthetized in 0.02% tricaine. An incision was made through the chest to gain access to the heart. Ventricles were exposed for roughly four seconds to a 0.5mm liquid nitrogen chilled stainless steel probe for cryoinjury or left alone for sham injury,RNA was extracted using Trizol Thermo Fisher Scientific phenol cholorform extraction. RNA quality was determined using an Agilent BioAnalyzer. RNA libraries were prepared for sequencing using the low input poly A BGISEQ 500RSRNASeqTranscriptome protocol.,Zebrafish Danio rerio were maintained at 28.5C on an Aquatic Habitats recirculating filtered water system in reverse osmosis purified water supplemented with Instant Ocean salts 60 mg/l on a 14 h light:10 h dark lighting cycle and fed a standard diet.,injury type:Sham Injured|genotype:yap / ,GSM3070340,GSM3070340: zebrafish heart yap sham 2; Danio rerio; RNA Seq,GSM3070340,,1,RNA was extracted using Trizol Thermo Fisher Scientific phenol cholorform extraction. RNA quality was determined using an Agilent BioAnalyzer. RNA libraries were prepared for sequencing using the low input poly A BGISEQ 500RSRNASeqTranscriptome protocol.,GEO Accession:GSM3070340,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,BGISEQ,BGISEQ-500,,SRP136723,,,170715_I13_CL100028033_L1_HK500ZEBvisRAAERABPEI-38_1.fq.gz,fastq,1422243650.0,28444873.0,GSM3070340 r1,0:50,A:396912878;C:311739320;G:316711298;T:395335784;N:1544370,50,,,,396912878,311739320,316711298,395335784,1544370,SRX3858787,SRS3106141,SRA675997,GEO,"Brian Link, Cell Biology, Neurobiology, & Anatomy, Medical College of Wisconsin",1,0.92453,,0.08919,,0.75402,,0.56482,,50,,B,,usable mapping rate,bgi,bgi,unknown,poly_a,unknown,bulk,unknown,unknown,,United States,2018-03-28,Undetermined,Adult,Heart,Cardiovascular System 48011,SRR6910780,SRX3858786,SRS3106146,SRP136723,PRJNA447594,RNAseq of regenerating yap mutant zebrafish hearts,GSE112452,Transcriptome Analysis,A Yap knockout zebrafish line was used to observe how loss of Yap affects cardiac regeneration. Overall design: Cryoinjury or sham surgeries were performed on 6 mpf 12 mpf zebrafish ventricles. At 7 xxx post injury whole hearts were collected and RNAseq was performed.,,pubmed:30295714,,zebrafish heart yap sham 1,GSM3070339,,tissue:7 xxx post injury sham yap mutant zebrafish heart replicate 1|injury type:Sham Injured|genotype:yap / ,zebrafish heart yap sham 1,"Primary sequencing data was conducted with a BGISEQ 500 50SE at 20M reads per sample. Raw reads are subjected to quality control QC to determine if a resequencing step is needed. post QC raw reads are filtered into clean reads which are aligned to the reference sequences. ""Dirty"" raw reads are reads which contain the sequence of adaptor high content of unknown bases and low quality reads and are removed before analysis. Bowtie2 was used to map clean reads to reference gene and HISAT used to reference genome. The Fragments Per Kilobase of transcript per Million mapped reads FPKM method is used to calculated expression level. Genome build: GRCz11 Supplementary files format and content: Excel files containing FKPM values for expression levels.",7 xxx post injury sham yap mutant zebrafish heart replicate 1,Zebrafish were anesthetized in 0.02% tricaine. An incision was made through the chest to gain access to the heart. Ventricles were exposed for roughly four seconds to a 0.5mm liquid nitrogen chilled stainless steel probe for cryoinjury or left alone for sham injury,RNA was extracted using Trizol Thermo Fisher Scientific phenol cholorform extraction. RNA quality was determined using an Agilent BioAnalyzer. RNA libraries were prepared for sequencing using the low input poly A BGISEQ 500RSRNASeqTranscriptome protocol.,Zebrafish Danio rerio were maintained at 28.5C on an Aquatic Habitats recirculating filtered water system in reverse osmosis purified water supplemented with Instant Ocean salts 60 mg/l on a 14 h light:10 h dark lighting cycle and fed a standard diet.,injury type:Sham Injured|genotype:yap / ,GSM3070339,GSM3070339: zebrafish heart yap sham 1; Danio rerio; RNA Seq,GSM3070339,,1,RNA was extracted using Trizol Thermo Fisher Scientific phenol cholorform extraction. RNA quality was determined using an Agilent BioAnalyzer. RNA libraries were prepared for sequencing using the low input poly A BGISEQ 500RSRNASeqTranscriptome protocol.,GEO Accession:GSM3070339,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,BGISEQ,BGISEQ-500,,SRP136723,,,170715_I13_CL100028033_L1_HK500ZEBvisRAADRABPEI-35_1.fq.gz,fastq,1414732800.0,28294656.0,GSM3070339 r1,0:50,A:382546700;C:323161121;G:333740729;T:373569891;N:1714359,50,,,,382546700,323161121,333740729,373569891,1714359,SRX3858786,SRS3106146,SRA675997,GEO,"Brian Link, Cell Biology, Neurobiology, & Anatomy, Medical College of Wisconsin",1,0.93663,,0.06374,,0.78476,,0.50181,,50,,B,,usable mapping rate,bgi,bgi,unknown,poly_a,unknown,bulk,unknown,unknown,,United States,2018-03-28,Undetermined,Adult,Heart,Cardiovascular System 48012,SRR6910779,SRX3858785,SRS3106140,SRP136723,PRJNA447594,RNAseq of regenerating yap mutant zebrafish hearts,GSE112452,Transcriptome Analysis,A Yap knockout zebrafish line was used to observe how loss of Yap affects cardiac regeneration. Overall design: Cryoinjury or sham surgeries were performed on 6 mpf 12 mpf zebrafish ventricles. At 7 xxx post injury whole hearts were collected and RNAseq was performed.,,pubmed:30295714,,zebrafish heart yap cryo 3,GSM3070338,,tissue:7 xxx post injury cryoinjury yap mutant zebrafish heart replicate 3|injury type:Cryoinjured|genotype:yap / ,zebrafish heart yap cryo 3,"Primary sequencing data was conducted with a BGISEQ 500 50SE at 20M reads per sample. Raw reads are subjected to quality control QC to determine if a resequencing step is needed. post QC raw reads are filtered into clean reads which are aligned to the reference sequences. ""Dirty"" raw reads are reads which contain the sequence of adaptor high content of unknown bases and low quality reads and are removed before analysis. Bowtie2 was used to map clean reads to reference gene and HISAT used to reference genome. The Fragments Per Kilobase of transcript per Million mapped reads FPKM method is used to calculated expression level. Genome build: GRCz11 Supplementary files format and content: Excel files containing FKPM values for expression levels.",7 xxx post injury cryoinjury yap mutant zebrafish heart replicate 3,Zebrafish were anesthetized in 0.02% tricaine. An incision was made through the chest to gain access to the heart. Ventricles were exposed for roughly four seconds to a 0.5mm liquid nitrogen chilled stainless steel probe for cryoinjury or left alone for sham injury,RNA was extracted using Trizol Thermo Fisher Scientific phenol cholorform extraction. RNA quality was determined using an Agilent BioAnalyzer. RNA libraries were prepared for sequencing using the low input poly A BGISEQ 500RSRNASeqTranscriptome protocol.,Zebrafish Danio rerio were maintained at 28.5C on an Aquatic Habitats recirculating filtered water system in reverse osmosis purified water supplemented with Instant Ocean salts 60 mg/l on a 14 h light:10 h dark lighting cycle and fed a standard diet.,injury type:Cryoinjured|genotype:yap / ,GSM3070338,GSM3070338: zebrafish heart yap cryo 3; Danio rerio; RNA Seq,GSM3070338,,1,RNA was extracted using Trizol Thermo Fisher Scientific phenol cholorform extraction. RNA quality was determined using an Agilent BioAnalyzer. RNA libraries were prepared for sequencing using the low input poly A BGISEQ 500RSRNASeqTranscriptome protocol.,GEO Accession:GSM3070338,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,BGISEQ,BGISEQ-500,,SRP136723,,,170715_I13_CL100028033_L1_HK500ZEBvisRAALRABPEI-45_1.fq.gz,fastq,1417604550.0,28352091.0,GSM3070338 r1,0:50,A:396320928;C:310857539;G:315507312;T:393521845;N:1396926,50,,,,396320928,310857539,315507312,393521845,1396926,SRX3858785,SRS3106140,SRA675997,GEO,"Brian Link, Cell Biology, Neurobiology, & Anatomy, Medical College of Wisconsin",1,0.93466,,0.08509,,0.76339,,0.55298,,50,,B,,usable mapping rate,bgi,bgi,unknown,poly_a,unknown,bulk,unknown,unknown,,United States,2018-03-28,Undetermined,Adult,Heart,Cardiovascular System 48013,SRR6910778,SRX3858784,SRS3106139,SRP136723,PRJNA447594,RNAseq of regenerating yap mutant zebrafish hearts,GSE112452,Transcriptome Analysis,A Yap knockout zebrafish line was used to observe how loss of Yap affects cardiac regeneration. Overall design: Cryoinjury or sham surgeries were performed on 6 mpf 12 mpf zebrafish ventricles. At 7 xxx post injury whole hearts were collected and RNAseq was performed.,,pubmed:30295714,,zebrafish heart yap cryo 2,GSM3070337,,tissue:7 xxx post injury cryoinjury yap mutant zebrafish heart replicate 2|injury type:Cryoinjured|genotype:yap / ,zebrafish heart yap cryo 2,"Primary sequencing data was conducted with a BGISEQ 500 50SE at 20M reads per sample. Raw reads are subjected to quality control QC to determine if a resequencing step is needed. post QC raw reads are filtered into clean reads which are aligned to the reference sequences. ""Dirty"" raw reads are reads which contain the sequence of adaptor high content of unknown bases and low quality reads and are removed before analysis. Bowtie2 was used to map clean reads to reference gene and HISAT used to reference genome. The Fragments Per Kilobase of transcript per Million mapped reads FPKM method is used to calculated expression level. Genome build: GRCz11 Supplementary files format and content: Excel files containing FKPM values for expression levels.",7 xxx post injury cryoinjury yap mutant zebrafish heart replicate 2,Zebrafish were anesthetized in 0.02% tricaine. An incision was made through the chest to gain access to the heart. Ventricles were exposed for roughly four seconds to a 0.5mm liquid nitrogen chilled stainless steel probe for cryoinjury or left alone for sham injury,RNA was extracted using Trizol Thermo Fisher Scientific phenol cholorform extraction. RNA quality was determined using an Agilent BioAnalyzer. RNA libraries were prepared for sequencing using the low input poly A BGISEQ 500RSRNASeqTranscriptome protocol.,Zebrafish Danio rerio were maintained at 28.5C on an Aquatic Habitats recirculating filtered water system in reverse osmosis purified water supplemented with Instant Ocean salts 60 mg/l on a 14 h light:10 h dark lighting cycle and fed a standard diet.,injury type:Cryoinjured|genotype:yap / ,GSM3070337,GSM3070337: zebrafish heart yap cryo 2; Danio rerio; RNA Seq,GSM3070337,,1,RNA was extracted using Trizol Thermo Fisher Scientific phenol cholorform extraction. RNA quality was determined using an Agilent BioAnalyzer. RNA libraries were prepared for sequencing using the low input poly A BGISEQ 500RSRNASeqTranscriptome protocol.,GEO Accession:GSM3070337,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,BGISEQ,BGISEQ-500,,SRP136723,,,170715_I13_CL100028033_L1_HK500ZEBvisRAAKRABPEI-44_1.fq.gz,fastq,1411684000.0,28233680.0,GSM3070337 r1,0:50,A:380723872;C:320871596;G:326847305;T:381926882;N:1314345,50,,,,380723872,320871596,326847305,381926882,1314345,SRX3858784,SRS3106139,SRA675997,GEO,"Brian Link, Cell Biology, Neurobiology, & Anatomy, Medical College of Wisconsin",1,0.93583,,0.07153,,0.76209,,0.53446,,50,,B,,usable mapping rate,bgi,bgi,unknown,poly_a,unknown,bulk,unknown,unknown,,United States,2018-03-28,Undetermined,Adult,Heart,Cardiovascular System 48014,SRR6910777,SRX3858783,SRS3106138,SRP136723,PRJNA447594,RNAseq of regenerating yap mutant zebrafish hearts,GSE112452,Transcriptome Analysis,A Yap knockout zebrafish line was used to observe how loss of Yap affects cardiac regeneration. Overall design: Cryoinjury or sham surgeries were performed on 6 mpf 12 mpf zebrafish ventricles. At 7 xxx post injury whole hearts were collected and RNAseq was performed.,,pubmed:30295714,,zebrafish heart yap cryo 1,GSM3070336,,tissue:7 xxx post injury cryoinjury yap mutant zebrafish heart replicate 1|injury type:Cryoinjured|genotype:yap / ,zebrafish heart yap cryo 1,"Primary sequencing data was conducted with a BGISEQ 500 50SE at 20M reads per sample. Raw reads are subjected to quality control QC to determine if a resequencing step is needed. post QC raw reads are filtered into clean reads which are aligned to the reference sequences. ""Dirty"" raw reads are reads which contain the sequence of adaptor high content of unknown bases and low quality reads and are removed before analysis. Bowtie2 was used to map clean reads to reference gene and HISAT used to reference genome. The Fragments Per Kilobase of transcript per Million mapped reads FPKM method is used to calculated expression level. Genome build: GRCz11 Supplementary files format and content: Excel files containing FKPM values for expression levels.",7 xxx post injury cryoinjury yap mutant zebrafish heart replicate 1,Zebrafish were anesthetized in 0.02% tricaine. An incision was made through the chest to gain access to the heart. Ventricles were exposed for roughly four seconds to a 0.5mm liquid nitrogen chilled stainless steel probe for cryoinjury or left alone for sham injury,RNA was extracted using Trizol Thermo Fisher Scientific phenol cholorform extraction. RNA quality was determined using an Agilent BioAnalyzer. RNA libraries were prepared for sequencing using the low input poly A BGISEQ 500RSRNASeqTranscriptome protocol.,Zebrafish Danio rerio were maintained at 28.5C on an Aquatic Habitats recirculating filtered water system in reverse osmosis purified water supplemented with Instant Ocean salts 60 mg/l on a 14 h light:10 h dark lighting cycle and fed a standard diet.,injury type:Cryoinjured|genotype:yap / ,GSM3070336,GSM3070336: zebrafish heart yap cryo 1; Danio rerio; RNA Seq,GSM3070336,,1,RNA was extracted using Trizol Thermo Fisher Scientific phenol cholorform extraction. RNA quality was determined using an Agilent BioAnalyzer. RNA libraries were prepared for sequencing using the low input poly A BGISEQ 500RSRNASeqTranscriptome protocol.,GEO Accession:GSM3070336,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,BGISEQ,BGISEQ-500,,SRP136723,,,170901_I13_CL100030164_L2_HK500ZEBljgRAAARAAPEI-2_1.fq.gz,fastq,983464900.0,19669298.0,GSM3070336 r1,0:50,A:281927620;C:213905948;G:225993312;T:260949314;N:688706,50,,,,281927620,213905948,225993312,260949314,688706,SRX3858783,SRS3106138,SRA675997,GEO,"Brian Link, Cell Biology, Neurobiology, & Anatomy, Medical College of Wisconsin",1,0.93596,,0.08164,,0.75753,,0.5319,,50,,B,,usable mapping rate,bgi,bgi,unknown,poly_a,unknown,bulk,unknown,unknown,,United States,2018-03-28,Undetermined,Adult,Heart,Cardiovascular System 48015,SRR6910776,SRX3858782,SRS3106137,SRP136723,PRJNA447594,RNAseq of regenerating yap mutant zebrafish hearts,GSE112452,Transcriptome Analysis,A Yap knockout zebrafish line was used to observe how loss of Yap affects cardiac regeneration. Overall design: Cryoinjury or sham surgeries were performed on 6 mpf 12 mpf zebrafish ventricles. At 7 xxx post injury whole hearts were collected and RNAseq was performed.,,pubmed:30295714,,zebrafish heart wt sham 3,GSM3070335,,tissue:7 xxx post injury sham wildtype zebrafish heart replicate 3|injury type:Sham Injured|genotype:yap +/+,zebrafish heart wt sham 3,"Primary sequencing data was conducted with a BGISEQ 500 50SE at 20M reads per sample. Raw reads are subjected to quality control QC to determine if a resequencing step is needed. post QC raw reads are filtered into clean reads which are aligned to the reference sequences. ""Dirty"" raw reads are reads which contain the sequence of adaptor high content of unknown bases and low quality reads and are removed before analysis. Bowtie2 was used to map clean reads to reference gene and HISAT used to reference genome. The Fragments Per Kilobase of transcript per Million mapped reads FPKM method is used to calculated expression level. Genome build: GRCz11 Supplementary files format and content: Excel files containing FKPM values for expression levels.",7 xxx post injury sham wildtype zebrafish heart replicate 3,Zebrafish were anesthetized in 0.02% tricaine. An incision was made through the chest to gain access to the heart. Ventricles were exposed for roughly four seconds to a 0.5mm liquid nitrogen chilled stainless steel probe for cryoinjury or left alone for sham injury,RNA was extracted using Trizol Thermo Fisher Scientific phenol cholorform extraction. RNA quality was determined using an Agilent BioAnalyzer. RNA libraries were prepared for sequencing using the low input poly A BGISEQ 500RSRNASeqTranscriptome protocol.,Zebrafish Danio rerio were maintained at 28.5C on an Aquatic Habitats recirculating filtered water system in reverse osmosis purified water supplemented with Instant Ocean salts 60 mg/l on a 14 h light:10 h dark lighting cycle and fed a standard diet.,injury type:Sham Injured|genotype:yap +/+,GSM3070335,GSM3070335: zebrafish heart wt sham 3; Danio rerio; RNA Seq,GSM3070335,,1,RNA was extracted using Trizol Thermo Fisher Scientific phenol cholorform extraction. RNA quality was determined using an Agilent BioAnalyzer. RNA libraries were prepared for sequencing using the low input poly A BGISEQ 500RSRNASeqTranscriptome protocol.,GEO Accession:GSM3070335,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,BGISEQ,BGISEQ-500,,SRP136723,,,170715_I13_CL100028033_L1_HK500ZEBvisRAACRABPEI-34_1.fq.gz,fastq,1422074600.0,28441492.0,GSM3070335 r1,0:50,A:391714900;C:316763778;G:323715902;T:388371260;N:1508760,50,,,,391714900,316763778,323715902,388371260,1508760,SRX3858782,SRS3106137,SRA675997,GEO,"Brian Link, Cell Biology, Neurobiology, & Anatomy, Medical College of Wisconsin",1,0.93511,,0.06875,,0.78374,,0.5442,,50,,B,,usable mapping rate,bgi,bgi,unknown,poly_a,unknown,bulk,unknown,unknown,,United States,2018-03-28,Undetermined,Adult,Heart,Cardiovascular System 48016,SRR6910775,SRX3858781,SRS3106142,SRP136723,PRJNA447594,RNAseq of regenerating yap mutant zebrafish hearts,GSE112452,Transcriptome Analysis,A Yap knockout zebrafish line was used to observe how loss of Yap affects cardiac regeneration. Overall design: Cryoinjury or sham surgeries were performed on 6 mpf 12 mpf zebrafish ventricles. At 7 xxx post injury whole hearts were collected and RNAseq was performed.,,pubmed:30295714,,zebrafish heart wt sham 2,GSM3070334,,tissue:7 xxx post injury sham wildtype zebrafish heart replicate 2|injury type:Sham Injured|genotype:yap +/+,zebrafish heart wt sham 2,"Primary sequencing data was conducted with a BGISEQ 500 50SE at 20M reads per sample. Raw reads are subjected to quality control QC to determine if a resequencing step is needed. post QC raw reads are filtered into clean reads which are aligned to the reference sequences. ""Dirty"" raw reads are reads which contain the sequence of adaptor high content of unknown bases and low quality reads and are removed before analysis. Bowtie2 was used to map clean reads to reference gene and HISAT used to reference genome. The Fragments Per Kilobase of transcript per Million mapped reads FPKM method is used to calculated expression level. Genome build: GRCz11 Supplementary files format and content: Excel files containing FKPM values for expression levels.",7 xxx post injury sham wildtype zebrafish heart replicate 2,Zebrafish were anesthetized in 0.02% tricaine. An incision was made through the chest to gain access to the heart. Ventricles were exposed for roughly four seconds to a 0.5mm liquid nitrogen chilled stainless steel probe for cryoinjury or left alone for sham injury,RNA was extracted using Trizol Thermo Fisher Scientific phenol cholorform extraction. RNA quality was determined using an Agilent BioAnalyzer. RNA libraries were prepared for sequencing using the low input poly A BGISEQ 500RSRNASeqTranscriptome protocol.,Zebrafish Danio rerio were maintained at 28.5C on an Aquatic Habitats recirculating filtered water system in reverse osmosis purified water supplemented with Instant Ocean salts 60 mg/l on a 14 h light:10 h dark lighting cycle and fed a standard diet.,injury type:Sham Injured|genotype:yap +/+,GSM3070334,GSM3070334: zebrafish heart wt sham 2; Danio rerio; RNA Seq,GSM3070334,,1,RNA was extracted using Trizol Thermo Fisher Scientific phenol cholorform extraction. RNA quality was determined using an Agilent BioAnalyzer. RNA libraries were prepared for sequencing using the low input poly A BGISEQ 500RSRNASeqTranscriptome protocol.,GEO Accession:GSM3070334,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,BGISEQ,BGISEQ-500,,SRP136723,,,170715_I13_CL100028033_L1_HK500ZEBvisRAABRABPEI-32_1.fq.gz,fastq,1422698650.0,28453973.0,GSM3070334 r1,0:50,A:393538224;C:315070062;G:319739652;T:393085965;N:1264747,50,,,,393538224,315070062,319739652,393085965,1264747,SRX3858781,SRS3106142,SRA675997,GEO,"Brian Link, Cell Biology, Neurobiology, & Anatomy, Medical College of Wisconsin",1,0.93436,,0.08499,,0.76599,,0.51331,,50,,B,,usable mapping rate,bgi,bgi,unknown,poly_a,unknown,bulk,unknown,unknown,,United States,2018-03-28,Undetermined,Adult,Heart,Cardiovascular System 48017,SRR6910774,SRX3858780,SRS3106135,SRP136723,PRJNA447594,RNAseq of regenerating yap mutant zebrafish hearts,GSE112452,Transcriptome Analysis,A Yap knockout zebrafish line was used to observe how loss of Yap affects cardiac regeneration. Overall design: Cryoinjury or sham surgeries were performed on 6 mpf 12 mpf zebrafish ventricles. At 7 xxx post injury whole hearts were collected and RNAseq was performed.,,pubmed:30295714,,zebrafish heart wt sham 1,GSM3070333,,tissue:7 xxx post injury sham wildtype zebrafish heart replicate 1|injury type:Sham Injured|genotype:yap +/+,zebrafish heart wt sham 1,"Primary sequencing data was conducted with a BGISEQ 500 50SE at 20M reads per sample. Raw reads are subjected to quality control QC to determine if a resequencing step is needed. post QC raw reads are filtered into clean reads which are aligned to the reference sequences. ""Dirty"" raw reads are reads which contain the sequence of adaptor high content of unknown bases and low quality reads and are removed before analysis. Bowtie2 was used to map clean reads to reference gene and HISAT used to reference genome. The Fragments Per Kilobase of transcript per Million mapped reads FPKM method is used to calculated expression level. Genome build: GRCz11 Supplementary files format and content: Excel files containing FKPM values for expression levels.",7 xxx post injury sham wildtype zebrafish heart replicate 1,Zebrafish were anesthetized in 0.02% tricaine. An incision was made through the chest to gain access to the heart. Ventricles were exposed for roughly four seconds to a 0.5mm liquid nitrogen chilled stainless steel probe for cryoinjury or left alone for sham injury,RNA was extracted using Trizol Thermo Fisher Scientific phenol cholorform extraction. RNA quality was determined using an Agilent BioAnalyzer. RNA libraries were prepared for sequencing using the low input poly A BGISEQ 500RSRNASeqTranscriptome protocol.,Zebrafish Danio rerio were maintained at 28.5C on an Aquatic Habitats recirculating filtered water system in reverse osmosis purified water supplemented with Instant Ocean salts 60 mg/l on a 14 h light:10 h dark lighting cycle and fed a standard diet.,injury type:Sham Injured|genotype:yap +/+,GSM3070333,GSM3070333: zebrafish heart wt sham 1; Danio rerio; RNA Seq,GSM3070333,,1,RNA was extracted using Trizol Thermo Fisher Scientific phenol cholorform extraction. RNA quality was determined using an Agilent BioAnalyzer. RNA libraries were prepared for sequencing using the low input poly A BGISEQ 500RSRNASeqTranscriptome protocol.,GEO Accession:GSM3070333,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,BGISEQ,BGISEQ-500,,SRP136723,,,170715_I13_CL100028033_L1_HK500ZEBvisRAAARAAPEI-30_1.fq.gz,fastq,1421323500.0,28426470.0,GSM3070333 r1,0:50,A:398883510;C:309497967;G:316648847;T:394532024;N:1761152,50,,,,398883510,309497967,316648847,394532024,1761152,SRX3858780,SRS3106135,SRA675997,GEO,"Brian Link, Cell Biology, Neurobiology, & Anatomy, Medical College of Wisconsin",1,0.93565,,0.0827,,0.77749,,0.54321,,50,,B,,usable mapping rate,bgi,bgi,unknown,poly_a,unknown,bulk,unknown,unknown,,United States,2018-03-28,Undetermined,Adult,Heart,Cardiovascular System 48018,SRR6910773,SRX3858779,SRS3106136,SRP136723,PRJNA447594,RNAseq of regenerating yap mutant zebrafish hearts,GSE112452,Transcriptome Analysis,A Yap knockout zebrafish line was used to observe how loss of Yap affects cardiac regeneration. Overall design: Cryoinjury or sham surgeries were performed on 6 mpf 12 mpf zebrafish ventricles. At 7 xxx post injury whole hearts were collected and RNAseq was performed.,,pubmed:30295714,,zebrafish heart wt cryo 3,GSM3070332,,tissue:7 xxx post injury cryoinjury wildtype zebrafish heart replicate 3|injury type:Cryoinjured|genotype:yap +/+,zebrafish heart wt cryo 3,"Primary sequencing data was conducted with a BGISEQ 500 50SE at 20M reads per sample. Raw reads are subjected to quality control QC to determine if a resequencing step is needed. post QC raw reads are filtered into clean reads which are aligned to the reference sequences. ""Dirty"" raw reads are reads which contain the sequence of adaptor high content of unknown bases and low quality reads and are removed before analysis. Bowtie2 was used to map clean reads to reference gene and HISAT used to reference genome. The Fragments Per Kilobase of transcript per Million mapped reads FPKM method is used to calculated expression level. Genome build: GRCz11 Supplementary files format and content: Excel files containing FKPM values for expression levels.",7 xxx post injury cryoinjury wildtype zebrafish heart replicate 3,Zebrafish were anesthetized in 0.02% tricaine. An incision was made through the chest to gain access to the heart. Ventricles were exposed for roughly four seconds to a 0.5mm liquid nitrogen chilled stainless steel probe for cryoinjury or left alone for sham injury,RNA was extracted using Trizol Thermo Fisher Scientific phenol cholorform extraction. RNA quality was determined using an Agilent BioAnalyzer. RNA libraries were prepared for sequencing using the low input poly A BGISEQ 500RSRNASeqTranscriptome protocol.,Zebrafish Danio rerio were maintained at 28.5C on an Aquatic Habitats recirculating filtered water system in reverse osmosis purified water supplemented with Instant Ocean salts 60 mg/l on a 14 h light:10 h dark lighting cycle and fed a standard diet.,injury type:Cryoinjured|genotype:yap +/+,GSM3070332,GSM3070332: zebrafish heart wt cryo 3; Danio rerio; RNA Seq,GSM3070332,,1,RNA was extracted using Trizol Thermo Fisher Scientific phenol cholorform extraction. RNA quality was determined using an Agilent BioAnalyzer. RNA libraries were prepared for sequencing using the low input poly A BGISEQ 500RSRNASeqTranscriptome protocol.,GEO Accession:GSM3070332,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,BGISEQ,BGISEQ-500,,SRP136723,,,170715_I13_CL100028033_L1_HK500ZEBvisRAAIRABPEI-42_1.fq.gz,fastq,1420446700.0,28408934.0,GSM3070332 r1,0:50,A:390252025;C:317481829;G:322013373;T:389237056;N:1462417,50,,,,390252025,317481829,322013373,389237056,1462417,SRX3858779,SRS3106136,SRA675997,GEO,"Brian Link, Cell Biology, Neurobiology, & Anatomy, Medical College of Wisconsin",1,0.92817,,0.08055,,0.75304,,0.54626,,50,,B,,usable mapping rate,bgi,bgi,unknown,poly_a,unknown,bulk,unknown,unknown,,United States,2018-03-28,Undetermined,Adult,Heart,Cardiovascular System 48019,SRR6910772,SRX3858778,SRS3106133,SRP136723,PRJNA447594,RNAseq of regenerating yap mutant zebrafish hearts,GSE112452,Transcriptome Analysis,A Yap knockout zebrafish line was used to observe how loss of Yap affects cardiac regeneration. Overall design: Cryoinjury or sham surgeries were performed on 6 mpf 12 mpf zebrafish ventricles. At 7 xxx post injury whole hearts were collected and RNAseq was performed.,,pubmed:30295714,,zebrafish heart wt cryo 2,GSM3070331,,tissue:7 xxx post injury cryoinjury wildtype zebrafish heart replicate 2|injury type:Cryoinjured|genotype:yap +/+,zebrafish heart wt cryo 2,"Primary sequencing data was conducted with a BGISEQ 500 50SE at 20M reads per sample. Raw reads are subjected to quality control QC to determine if a resequencing step is needed. post QC raw reads are filtered into clean reads which are aligned to the reference sequences. ""Dirty"" raw reads are reads which contain the sequence of adaptor high content of unknown bases and low quality reads and are removed before analysis. Bowtie2 was used to map clean reads to reference gene and HISAT used to reference genome. The Fragments Per Kilobase of transcript per Million mapped reads FPKM method is used to calculated expression level. Genome build: GRCz11 Supplementary files format and content: Excel files containing FKPM values for expression levels.",7 xxx post injury cryoinjury wildtype zebrafish heart replicate 2,Zebrafish were anesthetized in 0.02% tricaine. An incision was made through the chest to gain access to the heart. Ventricles were exposed for roughly four seconds to a 0.5mm liquid nitrogen chilled stainless steel probe for cryoinjury or left alone for sham injury,RNA was extracted using Trizol Thermo Fisher Scientific phenol cholorform extraction. RNA quality was determined using an Agilent BioAnalyzer. RNA libraries were prepared for sequencing using the low input poly A BGISEQ 500RSRNASeqTranscriptome protocol.,Zebrafish Danio rerio were maintained at 28.5C on an Aquatic Habitats recirculating filtered water system in reverse osmosis purified water supplemented with Instant Ocean salts 60 mg/l on a 14 h light:10 h dark lighting cycle and fed a standard diet.,injury type:Cryoinjured|genotype:yap +/+,GSM3070331,GSM3070331: zebrafish heart wt cryo 2; Danio rerio; RNA Seq,GSM3070331,,1,RNA was extracted using Trizol Thermo Fisher Scientific phenol cholorform extraction. RNA quality was determined using an Agilent BioAnalyzer. RNA libraries were prepared for sequencing using the low input poly A BGISEQ 500RSRNASeqTranscriptome protocol.,GEO Accession:GSM3070331,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,BGISEQ,BGISEQ-500,,SRP136723,,,170715_I13_CL100028033_L1_HK500ZEBvisRAAHRABPEI-41_1.fq.gz,fastq,1422338300.0,28446766.0,GSM3070331 r1,0:50,A:393674065;C:315125662;G:322045666;T:389932855;N:1560052,50,,,,393674065,315125662,322045666,389932855,1560052,SRX3858778,SRS3106133,SRA675997,GEO,"Brian Link, Cell Biology, Neurobiology, & Anatomy, Medical College of Wisconsin",1,0.9294,,0.08412,,0.75749,,0.52514,,50,,B,,usable mapping rate,bgi,bgi,unknown,poly_a,unknown,bulk,unknown,unknown,,United States,2018-03-28,Undetermined,Adult,Heart,Cardiovascular System 48020,SRR6910771,SRX3858777,SRS3106134,SRP136723,PRJNA447594,RNAseq of regenerating yap mutant zebrafish hearts,GSE112452,Transcriptome Analysis,A Yap knockout zebrafish line was used to observe how loss of Yap affects cardiac regeneration. Overall design: Cryoinjury or sham surgeries were performed on 6 mpf 12 mpf zebrafish ventricles. At 7 xxx post injury whole hearts were collected and RNAseq was performed.,,pubmed:30295714,,zebrafish heart wt cryo 1,GSM3070330,,tissue:7 xxx post injury cryoinjury wildtype zebrafish heart replicate 1|injury type:Cryoinjured|genotype:yap +/+,zebrafish heart wt cryo 1,"Primary sequencing data was conducted with a BGISEQ 500 50SE at 20M reads per sample. Raw reads are subjected to quality control QC to determine if a resequencing step is needed. post QC raw reads are filtered into clean reads which are aligned to the reference sequences. ""Dirty"" raw reads are reads which contain the sequence of adaptor high content of unknown bases and low quality reads and are removed before analysis. Bowtie2 was used to map clean reads to reference gene and HISAT used to reference genome. The Fragments Per Kilobase of transcript per Million mapped reads FPKM method is used to calculated expression level. Genome build: GRCz11 Supplementary files format and content: Excel files containing FKPM values for expression levels.",7 xxx post injury cryoinjury wildtype zebrafish heart replicate 1,Zebrafish were anesthetized in 0.02% tricaine. An incision was made through the chest to gain access to the heart. Ventricles were exposed for roughly four seconds to a 0.5mm liquid nitrogen chilled stainless steel probe for cryoinjury or left alone for sham injury,RNA was extracted using Trizol Thermo Fisher Scientific phenol cholorform extraction. RNA quality was determined using an Agilent BioAnalyzer. RNA libraries were prepared for sequencing using the low input poly A BGISEQ 500RSRNASeqTranscriptome protocol.,Zebrafish Danio rerio were maintained at 28.5C on an Aquatic Habitats recirculating filtered water system in reverse osmosis purified water supplemented with Instant Ocean salts 60 mg/l on a 14 h light:10 h dark lighting cycle and fed a standard diet.,injury type:Cryoinjured|genotype:yap +/+,GSM3070330,GSM3070330: zebrafish heart wt cryo 1; Danio rerio; RNA Seq,GSM3070330,,1,RNA was extracted using Trizol Thermo Fisher Scientific phenol cholorform extraction. RNA quality was determined using an Agilent BioAnalyzer. RNA libraries were prepared for sequencing using the low input poly A BGISEQ 500RSRNASeqTranscriptome protocol.,GEO Accession:GSM3070330,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,BGISEQ,BGISEQ-500,,SRP136723,,,170715_I13_CL100028033_L1_HK500ZEBvisRAAGRABPEI-40_1.fq.gz,fastq,1419380450.0,28387609.0,GSM3070330 r1,0:50,A:393618390;C:313492075;G:321642338;T:389289283;N:1338364,50,,,,393618390,313492075,321642338,389289283,1338364,SRX3858777,SRS3106134,SRA675997,GEO,"Brian Link, Cell Biology, Neurobiology, & Anatomy, Medical College of Wisconsin",1,0.93599,,0.08586,,0.75381,,0.52578,,50,,B,,usable mapping rate,bgi,bgi,unknown,poly_a,unknown,bulk,unknown,unknown,,United States,2018-03-28,Undetermined,Adult,Heart,Cardiovascular System 57259,SRR11294128,SRX7899687,SRS6307737,SRP252540,PRJNA612190,Tp53 suppression promotes cardiomyocyte proliferation during zebrafish heart regeneration,GSE146859,Transcriptome Analysis,Transcriptome sequencing of uninjured and regenerating 7dpi tp53M214K and tp53WT ventricles. Overall design: 4 experimental groups were analyzed in triplicates: 1 uninjured ventricle of tp53 mutant fish; 2 injured ventricle of tp53 mutant fish; 3 uninjured ventricle of tp53 wild type fish; 4 injured ventricle of tp53 wild type fish.,,pubmed:32877671,,Ventricles uninj p53 pos.rep3,GSM4407932,,source name:Ventricles of uninjured TgtpWT zebrafish|genotype:Tgtp53WT|strain:EK /AB strain|treatment: 17 hours treatment with 0.5 μM tamoxifen|tissue:Ventricles,Ventricles uninj p53 pos.rep3,RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. Genome build: danRer10 Supplementary files format and content: raw counts of sequencing reads for the features of interest,Ventricles of uninjured TgtpWT zebrafish,Fish were treated 17 hours with 0.5 μM tamoxifen to ablate cardiomyocytes. Control fish were equally treated.,Zebrafish ventricles were collected and placed in cold PBS while still pumping to help decrease intra ventricular blood. Atrium and outflow tract were removed and ventricles 5 per sample were homogenized in Trizol using a Tissue Lyser II QIAGEN. RNA was extracted using the standard Trizol protocol genomic DNA removed using RNA clean and Concentrator Kit Zymo Research and processed for libraries preparation. Libraries were constructed by single end 50 bp sequencing with 30 M reads/sample was performed at BGI. RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. DESeq2 v 1.26.0 was employed for differential expression analysis.,Fish were grown at 28 degrees. Male and female animals between 6 month and 12 month and of 2 cm in length were used.,genotype:Tgtp53WT|strain:EK /AB strain|treatment: 17 hours treatment with 0.5 μM tamoxifen|tissue:Ventricles,GSM4407932,GSM4407932: Ventricles uninj p53 pos.rep3; Danio rerio; RNA Seq,GSM4407932,,1,Zebrafish ventricles were collected and placed in cold PBS while still pumping to help decrease intra ventricular blood. Atrium and outflow tract were removed and ventricles 5 per sample were homogenized in Trizol using a Tissue Lyser II QIAGEN. RNA was extracted using the standard Trizol protocol genomic DNA removed using RNA clean and Concentrator Kit Zymo Research and processed for libraries preparation. Libraries were constructed by single end 50 bp sequencing with 30 M reads/sample was performed at BGI. RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. DESeq2 v 1.26.0 was employed for differential expression analysis.,GEO Accession:GSM4407932,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,BGISEQ,BGISEQ-500,,SRP252540,,,CL100137114_L1_HK500ZEBortRAADRAAPEI-512_1.fq.gz,fastq,1835058950.0,36701179.0,GSM4407932 r1,0:50,A:502113193;C:411542245;G:409297699;T:512105813;N:0,50,,,,502113193,411542245,409297699,512105813,0,SRX7899687,SRS6307737,SRA1054226,GEO,"Poss, Cell Biology, Duke University",1,0.93734,,0.0825,,0.77094,,0.54336,,50,,B,,usable mapping rate,bgi,bgi,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2020-03-12,Adult,Adult,Heart,Cardiovascular System 57260,SRR11294127,SRX7899686,SRS6307736,SRP252540,PRJNA612190,Tp53 suppression promotes cardiomyocyte proliferation during zebrafish heart regeneration,GSE146859,Transcriptome Analysis,Transcriptome sequencing of uninjured and regenerating 7dpi tp53M214K and tp53WT ventricles. Overall design: 4 experimental groups were analyzed in triplicates: 1 uninjured ventricle of tp53 mutant fish; 2 injured ventricle of tp53 mutant fish; 3 uninjured ventricle of tp53 wild type fish; 4 injured ventricle of tp53 wild type fish.,,pubmed:32877671,,Ventricles uninj p53 pos.rep2,GSM4407931,,source name:Ventricles of uninjured TgtpWT zebrafish|genotype:Tgtp53WT|strain:EK /AB strain|treatment: 17 hours treatment with 0.5 μM tamoxifen|tissue:Ventricles,Ventricles uninj p53 pos.rep2,RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. Genome build: danRer10 Supplementary files format and content: raw counts of sequencing reads for the features of interest,Ventricles of uninjured TgtpWT zebrafish,Fish were treated 17 hours with 0.5 μM tamoxifen to ablate cardiomyocytes. Control fish were equally treated.,Zebrafish ventricles were collected and placed in cold PBS while still pumping to help decrease intra ventricular blood. Atrium and outflow tract were removed and ventricles 5 per sample were homogenized in Trizol using a Tissue Lyser II QIAGEN. RNA was extracted using the standard Trizol protocol genomic DNA removed using RNA clean and Concentrator Kit Zymo Research and processed for libraries preparation. Libraries were constructed by single end 50 bp sequencing with 30 M reads/sample was performed at BGI. RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. DESeq2 v 1.26.0 was employed for differential expression analysis.,Fish were grown at 28 degrees. Male and female animals between 6 month and 12 month and of 2 cm in length were used.,genotype:Tgtp53WT|strain:EK /AB strain|treatment: 17 hours treatment with 0.5 μM tamoxifen|tissue:Ventricles,GSM4407931,GSM4407931: Ventricles uninj p53 pos.rep2; Danio rerio; RNA Seq,GSM4407931,,1,Zebrafish ventricles were collected and placed in cold PBS while still pumping to help decrease intra ventricular blood. Atrium and outflow tract were removed and ventricles 5 per sample were homogenized in Trizol using a Tissue Lyser II QIAGEN. RNA was extracted using the standard Trizol protocol genomic DNA removed using RNA clean and Concentrator Kit Zymo Research and processed for libraries preparation. Libraries were constructed by single end 50 bp sequencing with 30 M reads/sample was performed at BGI. RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. DESeq2 v 1.26.0 was employed for differential expression analysis.,GEO Accession:GSM4407931,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,BGISEQ,BGISEQ-500,,SRP252540,,,CL100137114_L1_HK500ZEBortRAACRAAPEI-511_1.fq.gz,fastq,1834865450.0,36697309.0,GSM4407931 r1,0:50,A:505143598;C:405191113;G:410587735;T:513943004;N:0,50,,,,505143598,405191113,410587735,513943004,0,SRX7899686,SRS6307736,SRA1054226,GEO,"Poss, Cell Biology, Duke University",1,0.93631,,0.08049,,0.76481,,0.50179,,50,,B,,usable mapping rate,bgi,bgi,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2020-03-12,Adult,Adult,Heart,Cardiovascular System 57261,SRR11294126,SRX7899685,SRS6307735,SRP252540,PRJNA612190,Tp53 suppression promotes cardiomyocyte proliferation during zebrafish heart regeneration,GSE146859,Transcriptome Analysis,Transcriptome sequencing of uninjured and regenerating 7dpi tp53M214K and tp53WT ventricles. Overall design: 4 experimental groups were analyzed in triplicates: 1 uninjured ventricle of tp53 mutant fish; 2 injured ventricle of tp53 mutant fish; 3 uninjured ventricle of tp53 wild type fish; 4 injured ventricle of tp53 wild type fish.,,pubmed:32877671,,Ventricles uninj p53 pos.rep1,GSM4407930,,source name:Ventricles of uninjured TgtpWT zebrafish|genotype:Tgtp53WT|strain:EK /AB strain|treatment: 17 hours treatment with 0.5 μM tamoxifen|tissue:Ventricles,Ventricles uninj p53 pos.rep1,RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. Genome build: danRer10 Supplementary files format and content: raw counts of sequencing reads for the features of interest,Ventricles of uninjured TgtpWT zebrafish,Fish were treated 17 hours with 0.5 μM tamoxifen to ablate cardiomyocytes. Control fish were equally treated.,Zebrafish ventricles were collected and placed in cold PBS while still pumping to help decrease intra ventricular blood. Atrium and outflow tract were removed and ventricles 5 per sample were homogenized in Trizol using a Tissue Lyser II QIAGEN. RNA was extracted using the standard Trizol protocol genomic DNA removed using RNA clean and Concentrator Kit Zymo Research and processed for libraries preparation. Libraries were constructed by single end 50 bp sequencing with 30 M reads/sample was performed at BGI. RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. DESeq2 v 1.26.0 was employed for differential expression analysis.,Fish were grown at 28 degrees. Male and female animals between 6 month and 12 month and of 2 cm in length were used.,genotype:Tgtp53WT|strain:EK /AB strain|treatment: 17 hours treatment with 0.5 μM tamoxifen|tissue:Ventricles,GSM4407930,GSM4407930: Ventricles uninj p53 pos.rep1; Danio rerio; RNA Seq,GSM4407930,,1,Zebrafish ventricles were collected and placed in cold PBS while still pumping to help decrease intra ventricular blood. Atrium and outflow tract were removed and ventricles 5 per sample were homogenized in Trizol using a Tissue Lyser II QIAGEN. RNA was extracted using the standard Trizol protocol genomic DNA removed using RNA clean and Concentrator Kit Zymo Research and processed for libraries preparation. Libraries were constructed by single end 50 bp sequencing with 30 M reads/sample was performed at BGI. RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. DESeq2 v 1.26.0 was employed for differential expression analysis.,GEO Accession:GSM4407930,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,BGISEQ,BGISEQ-500,,SRP252540,,,CL100137114_L1_HK500ZEBortRAABRAAPEI-510_1.fq.gz,fastq,1834689950.0,36693799.0,GSM4407930 r1,0:50,A:504160420;C:403583740;G:412496526;T:514449264;N:0,50,,,,504160420,403583740,412496526,514449264,0,SRX7899685,SRS6307735,SRA1054226,GEO,"Poss, Cell Biology, Duke University",1,0.93629,,0.08291,,0.77356,,0.49244,,50,,B,,usable mapping rate,bgi,bgi,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2020-03-12,Adult,Adult,Heart,Cardiovascular System 57262,SRR11294125,SRX7899684,SRS6307734,SRP252540,PRJNA612190,Tp53 suppression promotes cardiomyocyte proliferation during zebrafish heart regeneration,GSE146859,Transcriptome Analysis,Transcriptome sequencing of uninjured and regenerating 7dpi tp53M214K and tp53WT ventricles. Overall design: 4 experimental groups were analyzed in triplicates: 1 uninjured ventricle of tp53 mutant fish; 2 injured ventricle of tp53 mutant fish; 3 uninjured ventricle of tp53 wild type fish; 4 injured ventricle of tp53 wild type fish.,,pubmed:32877671,,Ventricles uninj p53 neg.rep3,GSM4407929,,source name:Ventricles of uninjured Tgtp53M214K zebrafish|genotype:Tgtp53M214K|strain:EK /AB strain|treatment: 17 hours treatment with 0.5 μM tamoxifen|tissue:Ventricles,Ventricles uninj p53 neg.rep3,RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. Genome build: danRer10 Supplementary files format and content: raw counts of sequencing reads for the features of interest,Ventricles of uninjured Tgtp53M214K zebrafish,Fish were treated 17 hours with 0.5 μM tamoxifen to ablate cardiomyocytes. Control fish were equally treated.,Zebrafish ventricles were collected and placed in cold PBS while still pumping to help decrease intra ventricular blood. Atrium and outflow tract were removed and ventricles 5 per sample were homogenized in Trizol using a Tissue Lyser II QIAGEN. RNA was extracted using the standard Trizol protocol genomic DNA removed using RNA clean and Concentrator Kit Zymo Research and processed for libraries preparation. Libraries were constructed by single end 50 bp sequencing with 30 M reads/sample was performed at BGI. RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. DESeq2 v 1.26.0 was employed for differential expression analysis.,Fish were grown at 28 degrees. Male and female animals between 6 month and 12 month and of 2 cm in length were used.,genotype:Tgtp53M214K|strain:EK /AB strain|treatment: 17 hours treatment with 0.5 μM tamoxifen|tissue:Ventricles,GSM4407929,GSM4407929: Ventricles uninj p53 neg.rep3; Danio rerio; RNA Seq,GSM4407929,,1,Zebrafish ventricles were collected and placed in cold PBS while still pumping to help decrease intra ventricular blood. Atrium and outflow tract were removed and ventricles 5 per sample were homogenized in Trizol using a Tissue Lyser II QIAGEN. RNA was extracted using the standard Trizol protocol genomic DNA removed using RNA clean and Concentrator Kit Zymo Research and processed for libraries preparation. Libraries were constructed by single end 50 bp sequencing with 30 M reads/sample was performed at BGI. RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. DESeq2 v 1.26.0 was employed for differential expression analysis.,GEO Accession:GSM4407929,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,BGISEQ,BGISEQ-500,,SRP252540,,,CL100137114_L1_HK500ZEBortRAAIRAAPEI-521_1.fq.gz,fastq,1834395600.0,36687912.0,GSM4407929 r1,0:50,A:499900882;C:409384440;G:414252017;T:510858261;N:0,50,,,,499900882,409384440,414252017,510858261,0,SRX7899684,SRS6307734,SRA1054226,GEO,"Poss, Cell Biology, Duke University",1,0.93583,,0.07847,,0.76974,,0.54357,,50,,B,,usable mapping rate,bgi,bgi,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2020-03-12,Adult,Adult,Heart,Cardiovascular System 57263,SRR11294124,SRX7899683,SRS6307733,SRP252540,PRJNA612190,Tp53 suppression promotes cardiomyocyte proliferation during zebrafish heart regeneration,GSE146859,Transcriptome Analysis,Transcriptome sequencing of uninjured and regenerating 7dpi tp53M214K and tp53WT ventricles. Overall design: 4 experimental groups were analyzed in triplicates: 1 uninjured ventricle of tp53 mutant fish; 2 injured ventricle of tp53 mutant fish; 3 uninjured ventricle of tp53 wild type fish; 4 injured ventricle of tp53 wild type fish.,,pubmed:32877671,,Ventricles uninj p53 neg.rep2,GSM4407928,,source name:Ventricles of uninjured Tgtp53M214K zebrafish|genotype:Tgtp53M214K|strain:EK /AB strain|treatment: 17 hours treatment with 0.5 μM tamoxifen|tissue:Ventricles,Ventricles uninj p53 neg.rep2,RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. Genome build: danRer10 Supplementary files format and content: raw counts of sequencing reads for the features of interest,Ventricles of uninjured Tgtp53M214K zebrafish,Fish were treated 17 hours with 0.5 μM tamoxifen to ablate cardiomyocytes. Control fish were equally treated.,Zebrafish ventricles were collected and placed in cold PBS while still pumping to help decrease intra ventricular blood. Atrium and outflow tract were removed and ventricles 5 per sample were homogenized in Trizol using a Tissue Lyser II QIAGEN. RNA was extracted using the standard Trizol protocol genomic DNA removed using RNA clean and Concentrator Kit Zymo Research and processed for libraries preparation. Libraries were constructed by single end 50 bp sequencing with 30 M reads/sample was performed at BGI. RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. DESeq2 v 1.26.0 was employed for differential expression analysis.,Fish were grown at 28 degrees. Male and female animals between 6 month and 12 month and of 2 cm in length were used.,genotype:Tgtp53M214K|strain:EK /AB strain|treatment: 17 hours treatment with 0.5 μM tamoxifen|tissue:Ventricles,GSM4407928,GSM4407928: Ventricles uninj p53 neg.rep2; Danio rerio; RNA Seq,GSM4407928,,1,Zebrafish ventricles were collected and placed in cold PBS while still pumping to help decrease intra ventricular blood. Atrium and outflow tract were removed and ventricles 5 per sample were homogenized in Trizol using a Tissue Lyser II QIAGEN. RNA was extracted using the standard Trizol protocol genomic DNA removed using RNA clean and Concentrator Kit Zymo Research and processed for libraries preparation. Libraries were constructed by single end 50 bp sequencing with 30 M reads/sample was performed at BGI. RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. DESeq2 v 1.26.0 was employed for differential expression analysis.,GEO Accession:GSM4407928,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,BGISEQ,BGISEQ-500,,SRP252540,,,CL100137114_L1_HK500ZEBortRAAHRAAPEI-520_1.fq.gz,fastq,1834233850.0,36684677.0,GSM4407928 r1,0:50,A:504582681;C:405014837;G:412005765;T:512630567;N:0,50,,,,504582681,405014837,412005765,512630567,0,SRX7899683,SRS6307733,SRA1054226,GEO,"Poss, Cell Biology, Duke University",1,0.9324,,0.07997,,0.77975,,0.54924,,50,,B,,usable mapping rate,bgi,bgi,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2020-03-12,Adult,Adult,Heart,Cardiovascular System 57264,SRR11294123,SRX7899682,SRS6307732,SRP252540,PRJNA612190,Tp53 suppression promotes cardiomyocyte proliferation during zebrafish heart regeneration,GSE146859,Transcriptome Analysis,Transcriptome sequencing of uninjured and regenerating 7dpi tp53M214K and tp53WT ventricles. Overall design: 4 experimental groups were analyzed in triplicates: 1 uninjured ventricle of tp53 mutant fish; 2 injured ventricle of tp53 mutant fish; 3 uninjured ventricle of tp53 wild type fish; 4 injured ventricle of tp53 wild type fish.,,pubmed:32877671,,Ventricles uninj p53 neg.rep1,GSM4407927,,source name:Ventricles of uninjured Tgtp53M214K zebrafish|genotype:Tgtp53M214K|strain:EK /AB strain|treatment: 17 hours treatment with 0.5 μM tamoxifen|tissue:Ventricles,Ventricles uninj p53 neg.rep1,RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. Genome build: danRer10 Supplementary files format and content: raw counts of sequencing reads for the features of interest,Ventricles of uninjured Tgtp53M214K zebrafish,Fish were treated 17 hours with 0.5 μM tamoxifen to ablate cardiomyocytes. Control fish were equally treated.,Zebrafish ventricles were collected and placed in cold PBS while still pumping to help decrease intra ventricular blood. Atrium and outflow tract were removed and ventricles 5 per sample were homogenized in Trizol using a Tissue Lyser II QIAGEN. RNA was extracted using the standard Trizol protocol genomic DNA removed using RNA clean and Concentrator Kit Zymo Research and processed for libraries preparation. Libraries were constructed by single end 50 bp sequencing with 30 M reads/sample was performed at BGI. RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. DESeq2 v 1.26.0 was employed for differential expression analysis.,Fish were grown at 28 degrees. Male and female animals between 6 month and 12 month and of 2 cm in length were used.,genotype:Tgtp53M214K|strain:EK /AB strain|treatment: 17 hours treatment with 0.5 μM tamoxifen|tissue:Ventricles,GSM4407927,GSM4407927: Ventricles uninj p53 neg.rep1; Danio rerio; RNA Seq,GSM4407927,,1,Zebrafish ventricles were collected and placed in cold PBS while still pumping to help decrease intra ventricular blood. Atrium and outflow tract were removed and ventricles 5 per sample were homogenized in Trizol using a Tissue Lyser II QIAGEN. RNA was extracted using the standard Trizol protocol genomic DNA removed using RNA clean and Concentrator Kit Zymo Research and processed for libraries preparation. Libraries were constructed by single end 50 bp sequencing with 30 M reads/sample was performed at BGI. RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. DESeq2 v 1.26.0 was employed for differential expression analysis.,GEO Accession:GSM4407927,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,BGISEQ,BGISEQ-500,,SRP252540,,,CL100137114_L1_HK500ZEBortRAAGRAAPEI-519_1.fq.gz,fastq,1834275500.0,36685510.0,GSM4407927 r1,0:50,A:505039122;C:403354337;G:413206780;T:512675261;N:0,50,,,,505039122,403354337,413206780,512675261,0,SRX7899682,SRS6307732,SRA1054226,GEO,"Poss, Cell Biology, Duke University",1,0.93529,,0.07696,,0.77268,,0.49743,,50,,B,,usable mapping rate,bgi,bgi,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2020-03-12,Adult,Adult,Heart,Cardiovascular System 57265,SRR11294122,SRX7899681,SRS6307731,SRP252540,PRJNA612190,Tp53 suppression promotes cardiomyocyte proliferation during zebrafish heart regeneration,GSE146859,Transcriptome Analysis,Transcriptome sequencing of uninjured and regenerating 7dpi tp53M214K and tp53WT ventricles. Overall design: 4 experimental groups were analyzed in triplicates: 1 uninjured ventricle of tp53 mutant fish; 2 injured ventricle of tp53 mutant fish; 3 uninjured ventricle of tp53 wild type fish; 4 injured ventricle of tp53 wild type fish.,,pubmed:32877671,,Ventricles inj p53 pos.rep3,GSM4407926,,source name:Ventricles of TgCmlc2:CreER; β actin2:loxp mCherry STOP loxp DTA zebrafish 7 days post tamoxifen induced genetic ablation of cardiomyocytes|genotype:TgCmlc2:CreER; beta actin2:loxp mCherry STOP loxp DTA|strain:EK /AB strain|treatment: 17 hours treatment with 0.5 μM tamoxifen|tissue:Ventricles,Ventricles inj p53 pos.rep3,RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. Genome build: danRer10 Supplementary files format and content: raw counts of sequencing reads for the features of interest,Ventricles of TgCmlc2:CreER; β actin2:loxp mCherry STOP loxp DTA zebrafish 7 days post tamoxifen induced genetic ablation of cardiomyocytes,Fish were treated 17 hours with 0.5 μM tamoxifen to ablate cardiomyocytes. Control fish were equally treated.,Zebrafish ventricles were collected and placed in cold PBS while still pumping to help decrease intra ventricular blood. Atrium and outflow tract were removed and ventricles 5 per sample were homogenized in Trizol using a Tissue Lyser II QIAGEN. RNA was extracted using the standard Trizol protocol genomic DNA removed using RNA clean and Concentrator Kit Zymo Research and processed for libraries preparation. Libraries were constructed by single end 50 bp sequencing with 30 M reads/sample was performed at BGI. RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. DESeq2 v 1.26.0 was employed for differential expression analysis.,Fish were grown at 28 degrees. Male and female animals between 6 month and 12 month and of 2 cm in length were used.,genotype:TgCmlc2:CreER; beta actin2:loxp mCherry STOP loxp DTA|strain:EK /AB strain|treatment: 17 hours treatment with 0.5 μM tamoxifen|tissue:Ventricles,GSM4407926,GSM4407926: Ventricles inj p53 pos.rep3; Danio rerio; RNA Seq,GSM4407926,,1,Zebrafish ventricles were collected and placed in cold PBS while still pumping to help decrease intra ventricular blood. Atrium and outflow tract were removed and ventricles 5 per sample were homogenized in Trizol using a Tissue Lyser II QIAGEN. RNA was extracted using the standard Trizol protocol genomic DNA removed using RNA clean and Concentrator Kit Zymo Research and processed for libraries preparation. Libraries were constructed by single end 50 bp sequencing with 30 M reads/sample was performed at BGI. RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. DESeq2 v 1.26.0 was employed for differential expression analysis.,GEO Accession:GSM4407926,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,BGISEQ,BGISEQ-500,,SRP252540,,,CL100137114_L1_HK500ZEBortRAAFRAAPEI-518_1.fq.gz,fastq,1835175950.0,36703519.0,GSM4407926 r1,0:50,A:499063627;C:408145558;G:418471943;T:509494822;N:0,50,,,,499063627,408145558,418471943,509494822,0,SRX7899681,SRS6307731,SRA1054226,GEO,"Poss, Cell Biology, Duke University",1,0.92833,,0.09812,,0.73312,,0.51303,,50,,B,,usable mapping rate,bgi,bgi,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2020-03-12,Adult,Adult,Heart,Cardiovascular System 57266,SRR11294121,SRX7899680,SRS6307730,SRP252540,PRJNA612190,Tp53 suppression promotes cardiomyocyte proliferation during zebrafish heart regeneration,GSE146859,Transcriptome Analysis,Transcriptome sequencing of uninjured and regenerating 7dpi tp53M214K and tp53WT ventricles. Overall design: 4 experimental groups were analyzed in triplicates: 1 uninjured ventricle of tp53 mutant fish; 2 injured ventricle of tp53 mutant fish; 3 uninjured ventricle of tp53 wild type fish; 4 injured ventricle of tp53 wild type fish.,,pubmed:32877671,,Ventricles inj p53 pos.rep2,GSM4407925,,source name:Ventricles of TgCmlc2:CreER; β actin2:loxp mCherry STOP loxp DTA zebrafish 7 days post tamoxifen induced genetic ablation of cardiomyocytes|genotype:TgCmlc2:CreER; beta actin2:loxp mCherry STOP loxp DTA|strain:EK /AB strain|treatment: 17 hours treatment with 0.5 μM tamoxifen|tissue:Ventricles,Ventricles inj p53 pos.rep2,RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. Genome build: danRer10 Supplementary files format and content: raw counts of sequencing reads for the features of interest,Ventricles of TgCmlc2:CreER; β actin2:loxp mCherry STOP loxp DTA zebrafish 7 days post tamoxifen induced genetic ablation of cardiomyocytes,Fish were treated 17 hours with 0.5 μM tamoxifen to ablate cardiomyocytes. Control fish were equally treated.,Zebrafish ventricles were collected and placed in cold PBS while still pumping to help decrease intra ventricular blood. Atrium and outflow tract were removed and ventricles 5 per sample were homogenized in Trizol using a Tissue Lyser II QIAGEN. RNA was extracted using the standard Trizol protocol genomic DNA removed using RNA clean and Concentrator Kit Zymo Research and processed for libraries preparation. Libraries were constructed by single end 50 bp sequencing with 30 M reads/sample was performed at BGI. RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. DESeq2 v 1.26.0 was employed for differential expression analysis.,Fish were grown at 28 degrees. Male and female animals between 6 month and 12 month and of 2 cm in length were used.,genotype:TgCmlc2:CreER; beta actin2:loxp mCherry STOP loxp DTA|strain:EK /AB strain|treatment: 17 hours treatment with 0.5 μM tamoxifen|tissue:Ventricles,GSM4407925,GSM4407925: Ventricles inj p53 pos.rep2; Danio rerio; RNA Seq,GSM4407925,,1,Zebrafish ventricles were collected and placed in cold PBS while still pumping to help decrease intra ventricular blood. Atrium and outflow tract were removed and ventricles 5 per sample were homogenized in Trizol using a Tissue Lyser II QIAGEN. RNA was extracted using the standard Trizol protocol genomic DNA removed using RNA clean and Concentrator Kit Zymo Research and processed for libraries preparation. Libraries were constructed by single end 50 bp sequencing with 30 M reads/sample was performed at BGI. RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. DESeq2 v 1.26.0 was employed for differential expression analysis.,GEO Accession:GSM4407925,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,BGISEQ,BGISEQ-500,,SRP252540,,,CL100137114_L1_HK500ZEBortRAAERAAPEI-517_1.fq.gz,fastq,1835814750.0,36716295.0,GSM4407925 r1,0:50,A:502904715;C:405114927;G:414615503;T:513179605;N:0,50,,,,502904715,405114927,414615503,513179605,0,SRX7899680,SRS6307730,SRA1054226,GEO,"Poss, Cell Biology, Duke University",1,0.92779,,0.10001,,0.73943,,0.49706,,50,,B,,usable mapping rate,bgi,bgi,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2020-03-12,Adult,Adult,Heart,Cardiovascular System 57267,SRR11294120,SRX7899679,SRS6307729,SRP252540,PRJNA612190,Tp53 suppression promotes cardiomyocyte proliferation during zebrafish heart regeneration,GSE146859,Transcriptome Analysis,Transcriptome sequencing of uninjured and regenerating 7dpi tp53M214K and tp53WT ventricles. Overall design: 4 experimental groups were analyzed in triplicates: 1 uninjured ventricle of tp53 mutant fish; 2 injured ventricle of tp53 mutant fish; 3 uninjured ventricle of tp53 wild type fish; 4 injured ventricle of tp53 wild type fish.,,pubmed:32877671,,Ventricles inj p53 pos.rep1,GSM4407924,,source name:Ventricles of TgCmlc2:CreER; β actin2:loxp mCherry STOP loxp DTA zebrafish 7 days post tamoxifen induced genetic ablation of cardiomyocytes|genotype:TgCmlc2:CreER; beta actin2:loxp mCherry STOP loxp DTA|strain:EK /AB strain|treatment: 17 hours treatment with 0.5 μM tamoxifen|tissue:Ventricles,Ventricles inj p53 pos.rep1,RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. Genome build: danRer10 Supplementary files format and content: raw counts of sequencing reads for the features of interest,Ventricles of TgCmlc2:CreER; β actin2:loxp mCherry STOP loxp DTA zebrafish 7 days post tamoxifen induced genetic ablation of cardiomyocytes,Fish were treated 17 hours with 0.5 μM tamoxifen to ablate cardiomyocytes. Control fish were equally treated.,Zebrafish ventricles were collected and placed in cold PBS while still pumping to help decrease intra ventricular blood. Atrium and outflow tract were removed and ventricles 5 per sample were homogenized in Trizol using a Tissue Lyser II QIAGEN. RNA was extracted using the standard Trizol protocol genomic DNA removed using RNA clean and Concentrator Kit Zymo Research and processed for libraries preparation. Libraries were constructed by single end 50 bp sequencing with 30 M reads/sample was performed at BGI. RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. DESeq2 v 1.26.0 was employed for differential expression analysis.,Fish were grown at 28 degrees. Male and female animals between 6 month and 12 month and of 2 cm in length were used.,genotype:TgCmlc2:CreER; beta actin2:loxp mCherry STOP loxp DTA|strain:EK /AB strain|treatment: 17 hours treatment with 0.5 μM tamoxifen|tissue:Ventricles,GSM4407924,GSM4407924: Ventricles inj p53 pos.rep1; Danio rerio; RNA Seq,GSM4407924,,1,Zebrafish ventricles were collected and placed in cold PBS while still pumping to help decrease intra ventricular blood. Atrium and outflow tract were removed and ventricles 5 per sample were homogenized in Trizol using a Tissue Lyser II QIAGEN. RNA was extracted using the standard Trizol protocol genomic DNA removed using RNA clean and Concentrator Kit Zymo Research and processed for libraries preparation. Libraries were constructed by single end 50 bp sequencing with 30 M reads/sample was performed at BGI. RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. DESeq2 v 1.26.0 was employed for differential expression analysis.,GEO Accession:GSM4407924,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,BGISEQ,BGISEQ-500,,SRP252540,,,CL100137114_L1_HK500ZEBortRAAARAAPEI-509_1.fq.gz,fastq,1835668100.0,36713362.0,GSM4407924 r1,0:50,A:499256851;C:409731957;G:416052681;T:510626611;N:0,50,,,,499256851,409731957,416052681,510626611,0,SRX7899679,SRS6307729,SRA1054226,GEO,"Poss, Cell Biology, Duke University",1,0.92969,,0.10126,,0.73417,,0.51885,,50,,B,,usable mapping rate,bgi,bgi,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2020-03-12,Adult,Adult,Heart,Cardiovascular System 57268,SRR11294119,SRX7899678,SRS6307728,SRP252540,PRJNA612190,Tp53 suppression promotes cardiomyocyte proliferation during zebrafish heart regeneration,GSE146859,Transcriptome Analysis,Transcriptome sequencing of uninjured and regenerating 7dpi tp53M214K and tp53WT ventricles. Overall design: 4 experimental groups were analyzed in triplicates: 1 uninjured ventricle of tp53 mutant fish; 2 injured ventricle of tp53 mutant fish; 3 uninjured ventricle of tp53 wild type fish; 4 injured ventricle of tp53 wild type fish.,,pubmed:32877671,,Ventricles inj p53 neg.rep3,GSM4407923,,source name:Ventricles of TgCmlc2:CreER; β actin2:loxp mCherry STOP loxp DTA; tp53M214K zebrafish 7 days post tamoxifen induced genetic ablation of cardiomyocytes|genotype:TgCmlc2:CreER; beta actin2:loxp mCherry STOP loxp DTA; tp53M214K|strain:EK /AB strain|treatment: 17 hours treatment with 0.5 μM tamoxifen|tissue:Ventricles,Ventricles inj p53 neg.rep3,RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. Genome build: danRer10 Supplementary files format and content: raw counts of sequencing reads for the features of interest,Ventricles of TgCmlc2:CreER; β actin2:loxp mCherry STOP loxp DTA; tp53M214K zebrafish 7 days post tamoxifen induced genetic ablation of cardiomyocytes,Fish were treated 17 hours with 0.5 μM tamoxifen to ablate cardiomyocytes. Control fish were equally treated.,Zebrafish ventricles were collected and placed in cold PBS while still pumping to help decrease intra ventricular blood. Atrium and outflow tract were removed and ventricles 5 per sample were homogenized in Trizol using a Tissue Lyser II QIAGEN. RNA was extracted using the standard Trizol protocol genomic DNA removed using RNA clean and Concentrator Kit Zymo Research and processed for libraries preparation. Libraries were constructed by single end 50 bp sequencing with 30 M reads/sample was performed at BGI. RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. DESeq2 v 1.26.0 was employed for differential expression analysis.,Fish were grown at 28 degrees. Male and female animals between 6 month and 12 month and of 2 cm in length were used.,genotype:TgCmlc2:CreER; beta actin2:loxp mCherry STOP loxp DTA; tp53M214K|strain:EK /AB strain|treatment: 17 hours treatment with 0.5 μM tamoxifen|tissue:Ventricles,GSM4407923,GSM4407923: Ventricles inj p53 neg.rep3; Danio rerio; RNA Seq,GSM4407923,,1,Zebrafish ventricles were collected and placed in cold PBS while still pumping to help decrease intra ventricular blood. Atrium and outflow tract were removed and ventricles 5 per sample were homogenized in Trizol using a Tissue Lyser II QIAGEN. RNA was extracted using the standard Trizol protocol genomic DNA removed using RNA clean and Concentrator Kit Zymo Research and processed for libraries preparation. Libraries were constructed by single end 50 bp sequencing with 30 M reads/sample was performed at BGI. RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. DESeq2 v 1.26.0 was employed for differential expression analysis.,GEO Accession:GSM4407923,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,BGISEQ,BGISEQ-500,,SRP252540,,,CL100137114_L1_HK500ZEBortRAALRAAPEI-524_1.fq.gz,fastq,1835232550.0,36704651.0,GSM4407923 r1,0:50,A:499303964;C:408224392;G:413995749;T:513708445;N:0,50,,,,499303964,408224392,413995749,513708445,0,SRX7899678,SRS6307728,SRA1054226,GEO,"Poss, Cell Biology, Duke University",1,0.93048,,0.09466,,0.73949,,0.4978,,50,,B,,usable mapping rate,bgi,bgi,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2020-03-12,Adult,Adult,Heart,Cardiovascular System 57269,SRR11294118,SRX7899677,SRS6307727,SRP252540,PRJNA612190,Tp53 suppression promotes cardiomyocyte proliferation during zebrafish heart regeneration,GSE146859,Transcriptome Analysis,Transcriptome sequencing of uninjured and regenerating 7dpi tp53M214K and tp53WT ventricles. Overall design: 4 experimental groups were analyzed in triplicates: 1 uninjured ventricle of tp53 mutant fish; 2 injured ventricle of tp53 mutant fish; 3 uninjured ventricle of tp53 wild type fish; 4 injured ventricle of tp53 wild type fish.,,pubmed:32877671,,Ventricles inj p53 neg.rep2,GSM4407922,,source name:Ventricles of TgCmlc2:CreER; β actin2:loxp mCherry STOP loxp DTA; tp53M214K zebrafish 7 days post tamoxifen induced genetic ablation of cardiomyocytes|genotype:TgCmlc2:CreER; beta actin2:loxp mCherry STOP loxp DTA; tp53M214K|strain:EK /AB strain|treatment: 17 hours treatment with 0.5 μM tamoxifen|tissue:Ventricles,Ventricles inj p53 neg.rep2,RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. Genome build: danRer10 Supplementary files format and content: raw counts of sequencing reads for the features of interest,Ventricles of TgCmlc2:CreER; β actin2:loxp mCherry STOP loxp DTA; tp53M214K zebrafish 7 days post tamoxifen induced genetic ablation of cardiomyocytes,Fish were treated 17 hours with 0.5 μM tamoxifen to ablate cardiomyocytes. Control fish were equally treated.,Zebrafish ventricles were collected and placed in cold PBS while still pumping to help decrease intra ventricular blood. Atrium and outflow tract were removed and ventricles 5 per sample were homogenized in Trizol using a Tissue Lyser II QIAGEN. RNA was extracted using the standard Trizol protocol genomic DNA removed using RNA clean and Concentrator Kit Zymo Research and processed for libraries preparation. Libraries were constructed by single end 50 bp sequencing with 30 M reads/sample was performed at BGI. RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. DESeq2 v 1.26.0 was employed for differential expression analysis.,Fish were grown at 28 degrees. Male and female animals between 6 month and 12 month and of 2 cm in length were used.,genotype:TgCmlc2:CreER; beta actin2:loxp mCherry STOP loxp DTA; tp53M214K|strain:EK /AB strain|treatment: 17 hours treatment with 0.5 μM tamoxifen|tissue:Ventricles,GSM4407922,GSM4407922: Ventricles inj p53 neg.rep2; Danio rerio; RNA Seq,GSM4407922,,1,Zebrafish ventricles were collected and placed in cold PBS while still pumping to help decrease intra ventricular blood. Atrium and outflow tract were removed and ventricles 5 per sample were homogenized in Trizol using a Tissue Lyser II QIAGEN. RNA was extracted using the standard Trizol protocol genomic DNA removed using RNA clean and Concentrator Kit Zymo Research and processed for libraries preparation. Libraries were constructed by single end 50 bp sequencing with 30 M reads/sample was performed at BGI. RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. DESeq2 v 1.26.0 was employed for differential expression analysis.,GEO Accession:GSM4407922,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,BGISEQ,BGISEQ-500,,SRP252540,,,CL100137114_L1_HK500ZEBortRAAKRAAPEI-523_1.fq.gz,fastq,1835660400.0,36713208.0,GSM4407922 r1,0:50,A:500792390;C:406784182;G:416023927;T:512059901;N:0,50,,,,500792390,406784182,416023927,512059901,0,SRX7899677,SRS6307727,SRA1054226,GEO,"Poss, Cell Biology, Duke University",1,0.92669,,0.09942,,0.72817,,0.51645,,50,,B,,usable mapping rate,bgi,bgi,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2020-03-12,Adult,Adult,Heart,Cardiovascular System 57270,SRR11294117,SRX7899676,SRS6307726,SRP252540,PRJNA612190,Tp53 suppression promotes cardiomyocyte proliferation during zebrafish heart regeneration,GSE146859,Transcriptome Analysis,Transcriptome sequencing of uninjured and regenerating 7dpi tp53M214K and tp53WT ventricles. Overall design: 4 experimental groups were analyzed in triplicates: 1 uninjured ventricle of tp53 mutant fish; 2 injured ventricle of tp53 mutant fish; 3 uninjured ventricle of tp53 wild type fish; 4 injured ventricle of tp53 wild type fish.,,pubmed:32877671,,Ventricles inj p53 neg.rep1,GSM4407921,,source name:Ventricles of TgCmlc2:CreER; β actin2:loxp mCherry STOP loxp DTA; tp53M214K zebrafish 7 days post tamoxifen induced genetic ablation of cardiomyocytes|genotype:TgCmlc2:CreER; beta actin2:loxp mCherry STOP loxp DTA; tp53M214K|strain:EK /AB strain|treatment: 17 hours treatment with 0.5 μM tamoxifen|tissue:Ventricles,Ventricles inj p53 neg.rep1,RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. Genome build: danRer10 Supplementary files format and content: raw counts of sequencing reads for the features of interest,Ventricles of TgCmlc2:CreER; β actin2:loxp mCherry STOP loxp DTA; tp53M214K zebrafish 7 days post tamoxifen induced genetic ablation of cardiomyocytes,Fish were treated 17 hours with 0.5 μM tamoxifen to ablate cardiomyocytes. Control fish were equally treated.,Zebrafish ventricles were collected and placed in cold PBS while still pumping to help decrease intra ventricular blood. Atrium and outflow tract were removed and ventricles 5 per sample were homogenized in Trizol using a Tissue Lyser II QIAGEN. RNA was extracted using the standard Trizol protocol genomic DNA removed using RNA clean and Concentrator Kit Zymo Research and processed for libraries preparation. Libraries were constructed by single end 50 bp sequencing with 30 M reads/sample was performed at BGI. RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. DESeq2 v 1.26.0 was employed for differential expression analysis.,Fish were grown at 28 degrees. Male and female animals between 6 month and 12 month and of 2 cm in length were used.,genotype:TgCmlc2:CreER; beta actin2:loxp mCherry STOP loxp DTA; tp53M214K|strain:EK /AB strain|treatment: 17 hours treatment with 0.5 μM tamoxifen|tissue:Ventricles,GSM4407921,GSM4407921: Ventricles inj p53 neg.rep1; Danio rerio; RNA Seq,GSM4407921,,1,Zebrafish ventricles were collected and placed in cold PBS while still pumping to help decrease intra ventricular blood. Atrium and outflow tract were removed and ventricles 5 per sample were homogenized in Trizol using a Tissue Lyser II QIAGEN. RNA was extracted using the standard Trizol protocol genomic DNA removed using RNA clean and Concentrator Kit Zymo Research and processed for libraries preparation. Libraries were constructed by single end 50 bp sequencing with 30 M reads/sample was performed at BGI. RNA Seq reads were trimmed by Trim Galore 0.6.4 with q 15 and then mapped with TopHat v 2.1.1 with parameters b2 very sensitive no coverage search and supplying the UCSC danRer10 refSeq gene annotation. Gene level read counts were obtained using the htseq count v1.6.1 by the reads with MAPQ greater than 30. DESeq2 v 1.26.0 was employed for differential expression analysis.,GEO Accession:GSM4407921,RNA-Seq,TRANSCRIPTOMIC,cDNA,SINGLE,BGISEQ,BGISEQ-500,,SRP252540,,,CL100137114_L1_HK500ZEBortRAAJRAAPEI-522_1.fq.gz,fastq,1835899700.0,36717994.0,GSM4407921 r1,0:50,A:498483398;C:409943675;G:418983494;T:508489133;N:0,50,,,,498483398,409943675,418983494,508489133,0,SRX7899676,SRS6307726,SRA1054226,GEO,"Poss, Cell Biology, Duke University",1,0.93061,,0.09272,,0.73762,,0.51108,,50,,B,,usable mapping rate,bgi,bgi,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,United States,2020-03-12,Adult,Adult,Heart,Cardiovascular System