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
5879,ERR1759701,ERX1826022,ERS1474296,ERP020578,PRJEB18632,RNA Seq analyses of zebrafish cardiomyocytes at 72 hpf,E-MTAB-5323,Transcriptome Analysis,The aim of this analysis is to uncover novel  molecules synthesized and secreted from cardiomyocytes.,ENA FIRST PUBLIC:2016 12 20|ENA LAST UPDATE:2016 12 15|ArrayExpress:E MTAB 5323,,Protocols: To obtain only cardiomyocytes from the heart  two transgenic zebrafish lines were established; Tgmyl7:NLS mCherry and Tgmyl7:actn2 tdEos. Using cardiac myosin light chain myl7 promoter  nuclear localization signal conjugated monomeric Cherry or actinin alpha 2 conjugated tandem Eos was expressed in cardiomyocytes. Hearts resected from Tgmyl7:NLS mCherry or Tgmyl7:actn2 tdEos larvae at 72 hpf were collected and digested with protease solution PBS with 5 mg/ml trypsin and 1 mM EDTA  pH 8.0 for 1 h. Digestion was terminated with stop solution PBS with 30% fetal bovine serum and 6 mL calcium chloride. mCherry  or tdEos positive cells were collected as cardiomyocytes using a FACS Aria III cell sorter BD Bioscience Total RNAs were prepared from mCherry  or tdEos positive cells using a NucleoSpin XS kit Macherey Nagel according to the manufacture's instruction. Reverse transcription RT and cDNA library preparation were performed with a SMARTer Ultra Low RNA kit Clontech. cDNA was fragmented with a Covaris S 220 instrument Covaris. Subsequently  the sample was end repaired  dA tailed  adaptor ligated  and then subjected to PCR by using a NEBNext DNA Library Preparation and NEBNext Multiplex oligos for Illumina New England BioLabs.,Sample2,SAMEA27136168,Department of Cell Biology National Cerebral and Cardiovascular Center Research Institute,ENA first public:2016 12 20|ENA last update:2016 12 15|External Id:SAMEA27136168|INSDC center alias:Department of Cell Biology National Cerebral and Cardiovascular Center Research Institute|INSDC center name:Department of Cell Biology National Cerebral and Cardiovascular Center Research Institute|INSDC first public:2016 12 20T17:02:09Z|INSDC last update:2016 12 15T11:23:10Z|INSDC status:public|Submitter Id:E MTAB 5323:Sample2|broker name:ArrayExpress|cell type:cardiac myocyte|common name:zebrafish|developmental stage:72 hpf|genotype:Tgmyl7:actn2 tdEodncv44Tg|sample name:E MTAB 5323:Sample2,,,,,,,,,Illumina MiSeq sequencing; RNA Seq analyses of zebrafish cardiomyocytes at 72 hpf,E MTAB 5323:Sample2 s,Sample2 s,RNA Seq analyses of zebrafish cardiomyocytes at 72 hpf,To obtain only cardiomyocytes from the heart  two transgenic zebrafish lines were established; Tgmyl7:NLS mCherry and Tgmyl7:actn2 tdEos. Using cardiac myosin light chain myl7 promoter  nuclear localization signal conjugated monomeric Cherry or actinin alpha 2 conjugated tandem Eos was expressed in cardiomyocytes.   Hearts resected from Tgmyl7:NLS mCherry or Tgmyl7:actn2 tdEos larvae at 72 hpf were collected and digested with protease solution PBS with 5 mg/ml trypsin and 1 mM EDTA  pH 8.0 for 1 h. Digestion was terminated with stop solution PBS with 30% fetal bovine serum and 6 mL calcium chloride. mCherry  or tdEos positive cells were collected as cardiomyocytes using a FACS Aria III cell sorter BD Bioscience Total RNAs were prepared from mCherry  or tdEos positive cells using a NucleoSpin XS kit Macherey Nagel according to the manufacture’s instruction. Reverse transcription RT and cDNA library preparation were performed with a SMARTer Ultra Low RNA kit Clontech. cDNA was fragmented with a Covaris S 220 instrument Covaris. Subsequently  the sample was end repaired  dA tailed  adaptor ligated  and then subjected to PCR by using a NEBNext DNA Library Preparation and NEBNext Multiplex oligos for Illumina New England BioLabs.,Experimental Factor: Tgmyl7:actn2 tdEodncv44Tg:genotype,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiSeq,,ERP020578,Illumina MiSeq sequencing; RNA Seq analyses of zebrafish cardiomyocytes at 72 hpf,ENA FIRST PUBLIC:2016 12 20|ENA LAST UPDATE:2018 11 16,mochizukis_lab_myl7_actn2tdEos_72h_01.fastq.gz,fastq,448234901.0,6016977.0,E MTAB 5323:Sample2,0:74.50 1:0,A:118923409;C:100586009;G:99987046;T:126071553;N:2666884,74,0,,,118923409,100586009,99987046,126071553,2666884,ERX1826022,ERS1474296,ERA776061,Department of Cell Biology National Cerebral and Cardiovascular Center Research Institute|European Nucleotide Archive,Department of Cell Biology National Cerebral and Cardiovascular Center Research Institute|European Nucleotide Archive,1,0.88465,,0.27583,,0.75398,,0.55917,,75,,B,,usable mapping rate,illumina,miseq,full_length,poly_a,nebnext,bulk,unknown,unknown,,Japan,2016-12-15,Larval,Larval,Heart,Cardiovascular System
5880,ERR1759702,ERX1826022,ERS1474296,ERP020578,PRJEB18632,RNA Seq analyses of zebrafish cardiomyocytes at 72 hpf,E-MTAB-5323,Transcriptome Analysis,The aim of this analysis is to uncover novel  molecules synthesized and secreted from cardiomyocytes.,ENA FIRST PUBLIC:2016 12 20|ENA LAST UPDATE:2016 12 15|ArrayExpress:E MTAB 5323,,Protocols: To obtain only cardiomyocytes from the heart  two transgenic zebrafish lines were established; Tgmyl7:NLS mCherry and Tgmyl7:actn2 tdEos. Using cardiac myosin light chain myl7 promoter  nuclear localization signal conjugated monomeric Cherry or actinin alpha 2 conjugated tandem Eos was expressed in cardiomyocytes. Hearts resected from Tgmyl7:NLS mCherry or Tgmyl7:actn2 tdEos larvae at 72 hpf were collected and digested with protease solution PBS with 5 mg/ml trypsin and 1 mM EDTA  pH 8.0 for 1 h. Digestion was terminated with stop solution PBS with 30% fetal bovine serum and 6 mL calcium chloride. mCherry  or tdEos positive cells were collected as cardiomyocytes using a FACS Aria III cell sorter BD Bioscience Total RNAs were prepared from mCherry  or tdEos positive cells using a NucleoSpin XS kit Macherey Nagel according to the manufacture's instruction. Reverse transcription RT and cDNA library preparation were performed with a SMARTer Ultra Low RNA kit Clontech. cDNA was fragmented with a Covaris S 220 instrument Covaris. Subsequently  the sample was end repaired  dA tailed  adaptor ligated  and then subjected to PCR by using a NEBNext DNA Library Preparation and NEBNext Multiplex oligos for Illumina New England BioLabs.,Sample2,SAMEA27136168,Department of Cell Biology National Cerebral and Cardiovascular Center Research Institute,ENA first public:2016 12 20|ENA last update:2016 12 15|External Id:SAMEA27136168|INSDC center alias:Department of Cell Biology National Cerebral and Cardiovascular Center Research Institute|INSDC center name:Department of Cell Biology National Cerebral and Cardiovascular Center Research Institute|INSDC first public:2016 12 20T17:02:09Z|INSDC last update:2016 12 15T11:23:10Z|INSDC status:public|Submitter Id:E MTAB 5323:Sample2|broker name:ArrayExpress|cell type:cardiac myocyte|common name:zebrafish|developmental stage:72 hpf|genotype:Tgmyl7:actn2 tdEodncv44Tg|sample name:E MTAB 5323:Sample2,,,,,,,,,Illumina MiSeq sequencing; RNA Seq analyses of zebrafish cardiomyocytes at 72 hpf,E MTAB 5323:Sample2 s,Sample2 s,RNA Seq analyses of zebrafish cardiomyocytes at 72 hpf,To obtain only cardiomyocytes from the heart  two transgenic zebrafish lines were established; Tgmyl7:NLS mCherry and Tgmyl7:actn2 tdEos. Using cardiac myosin light chain myl7 promoter  nuclear localization signal conjugated monomeric Cherry or actinin alpha 2 conjugated tandem Eos was expressed in cardiomyocytes.   Hearts resected from Tgmyl7:NLS mCherry or Tgmyl7:actn2 tdEos larvae at 72 hpf were collected and digested with protease solution PBS with 5 mg/ml trypsin and 1 mM EDTA  pH 8.0 for 1 h. Digestion was terminated with stop solution PBS with 30% fetal bovine serum and 6 mL calcium chloride. mCherry  or tdEos positive cells were collected as cardiomyocytes using a FACS Aria III cell sorter BD Bioscience Total RNAs were prepared from mCherry  or tdEos positive cells using a NucleoSpin XS kit Macherey Nagel according to the manufacture’s instruction. Reverse transcription RT and cDNA library preparation were performed with a SMARTer Ultra Low RNA kit Clontech. cDNA was fragmented with a Covaris S 220 instrument Covaris. Subsequently  the sample was end repaired  dA tailed  adaptor ligated  and then subjected to PCR by using a NEBNext DNA Library Preparation and NEBNext Multiplex oligos for Illumina New England BioLabs.,Experimental Factor: Tgmyl7:actn2 tdEodncv44Tg:genotype,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiSeq,,ERP020578,Illumina MiSeq sequencing; RNA Seq analyses of zebrafish cardiomyocytes at 72 hpf,ENA FIRST PUBLIC:2016 12 20|ENA LAST UPDATE:2018 11 16,mochizukis_lab_myl7_actn2tdEos_72h_02.fastq.gz,fastq,448116860.0,6016977.0,E MTAB 5323:Sample2 1,0:0 1:74.48,A:127811460;C:99875207;G:106561979;T:113792335;N:75879,0,74,,,127811460,99875207,106561979,113792335,75879,ERX1826022,ERS1474296,ERA776061,Department of Cell Biology National Cerebral and Cardiovascular Center Research Institute|European Nucleotide Archive,Department of Cell Biology National Cerebral and Cardiovascular Center Research Institute|European Nucleotide Archive,1,0.91589,,0.2509,,0.79005,,0.54852,,75,,B,,usable mapping rate,illumina,miseq,full_length,poly_a,nebnext,bulk,unknown,unknown,,Japan,2016-12-15,Larval,Larval,Heart,Cardiovascular System
5881,ERR1759699,ERX1826021,ERS1474295,ERP020578,PRJEB18632,RNA Seq analyses of zebrafish cardiomyocytes at 72 hpf,E-MTAB-5323,Transcriptome Analysis,The aim of this analysis is to uncover novel  molecules synthesized and secreted from cardiomyocytes.,ENA FIRST PUBLIC:2016 12 20|ENA LAST UPDATE:2016 12 15|ArrayExpress:E MTAB 5323,,Protocols: To obtain only cardiomyocytes from the heart  two transgenic zebrafish lines were established; Tgmyl7:NLS mCherry and Tgmyl7:actn2 tdEos. Using cardiac myosin light chain myl7 promoter  nuclear localization signal conjugated monomeric Cherry or actinin alpha 2 conjugated tandem Eos was expressed in cardiomyocytes. Hearts resected from Tgmyl7:NLS mCherry or Tgmyl7:actn2 tdEos larvae at 72 hpf were collected and digested with protease solution PBS with 5 mg/ml trypsin and 1 mM EDTA  pH 8.0 for 1 h. Digestion was terminated with stop solution PBS with 30% fetal bovine serum and 6 mL calcium chloride. mCherry  or tdEos positive cells were collected as cardiomyocytes using a FACS Aria III cell sorter BD Bioscience Total RNAs were prepared from mCherry  or tdEos positive cells using a NucleoSpin XS kit Macherey Nagel according to the manufacture's instruction. Reverse transcription RT and cDNA library preparation were performed with a SMARTer Ultra Low RNA kit Clontech. cDNA was fragmented with a Covaris S 220 instrument Covaris. Subsequently  the sample was end repaired  dA tailed  adaptor ligated  and then subjected to PCR by using a NEBNext DNA Library Preparation and NEBNext Multiplex oligos for Illumina New England BioLabs.,Sample1,SAMEA27135418,Department of Cell Biology National Cerebral and Cardiovascular Center Research Institute,ENA first public:2016 12 20|ENA last update:2016 12 15|External Id:SAMEA27135418|INSDC center alias:Department of Cell Biology National Cerebral and Cardiovascular Center Research Institute|INSDC center name:Department of Cell Biology National Cerebral and Cardiovascular Center Research Institute|INSDC first public:2016 12 20T17:02:09Z|INSDC last update:2016 12 15T11:23:10Z|INSDC status:public|Submitter Id:E MTAB 5323:Sample1|broker name:ArrayExpress|cell type:cardiac myocyte|common name:zebrafish|developmental stage:72 hpf|genotype:Tgmyl7:Nls mCherryncv11Tg|sample name:E MTAB 5323:Sample1,,,,,,,,,Illumina MiSeq sequencing; RNA Seq analyses of zebrafish cardiomyocytes at 72 hpf,E MTAB 5323:Sample1 s,Sample1 s,RNA Seq analyses of zebrafish cardiomyocytes at 72 hpf,To obtain only cardiomyocytes from the heart  two transgenic zebrafish lines were established; Tgmyl7:NLS mCherry and Tgmyl7:actn2 tdEos. Using cardiac myosin light chain myl7 promoter  nuclear localization signal conjugated monomeric Cherry or actinin alpha 2 conjugated tandem Eos was expressed in cardiomyocytes.   Hearts resected from Tgmyl7:NLS mCherry or Tgmyl7:actn2 tdEos larvae at 72 hpf were collected and digested with protease solution PBS with 5 mg/ml trypsin and 1 mM EDTA  pH 8.0 for 1 h. Digestion was terminated with stop solution PBS with 30% fetal bovine serum and 6 mL calcium chloride. mCherry  or tdEos positive cells were collected as cardiomyocytes using a FACS Aria III cell sorter BD Bioscience Total RNAs were prepared from mCherry  or tdEos positive cells using a NucleoSpin XS kit Macherey Nagel according to the manufacture’s instruction. Reverse transcription RT and cDNA library preparation were performed with a SMARTer Ultra Low RNA kit Clontech. cDNA was fragmented with a Covaris S 220 instrument Covaris. Subsequently  the sample was end repaired  dA tailed  adaptor ligated  and then subjected to PCR by using a NEBNext DNA Library Preparation and NEBNext Multiplex oligos for Illumina New England BioLabs.,Experimental Factor: Tgmyl7:Nls mCherryncv11Tg:genotype,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiSeq,,ERP020578,Illumina MiSeq sequencing; RNA Seq analyses of zebrafish cardiomyocytes at 72 hpf,ENA FIRST PUBLIC:2016 12 20|ENA LAST UPDATE:2018 11 16,mochizukis_lab_myl7_NLSmCherry_72h_01.fastq.gz,fastq,766363334.0,10284347.0,E MTAB 5323:Sample1,0:74.52 1:0,A:201960096;C:174999154;G:173403690;T:211341998;N:4658396,74,0,,,201960096,174999154,173403690,211341998,4658396,ERX1826021,ERS1474295,ERA776061,Department of Cell Biology National Cerebral and Cardiovascular Center Research Institute|European Nucleotide Archive,Department of Cell Biology National Cerebral and Cardiovascular Center Research Institute|European Nucleotide Archive,1,0.86003,,0.20554,,0.76301,,0.55753,,74,,B,,usable mapping rate,illumina,miseq,full_length,poly_a,nebnext,bulk,unknown,unknown,,Japan,2016-12-15,Larval,Larval,Heart,Cardiovascular System
5882,ERR1759700,ERX1826021,ERS1474295,ERP020578,PRJEB18632,RNA Seq analyses of zebrafish cardiomyocytes at 72 hpf,E-MTAB-5323,Transcriptome Analysis,The aim of this analysis is to uncover novel  molecules synthesized and secreted from cardiomyocytes.,ENA FIRST PUBLIC:2016 12 20|ENA LAST UPDATE:2016 12 15|ArrayExpress:E MTAB 5323,,Protocols: To obtain only cardiomyocytes from the heart  two transgenic zebrafish lines were established; Tgmyl7:NLS mCherry and Tgmyl7:actn2 tdEos. Using cardiac myosin light chain myl7 promoter  nuclear localization signal conjugated monomeric Cherry or actinin alpha 2 conjugated tandem Eos was expressed in cardiomyocytes. Hearts resected from Tgmyl7:NLS mCherry or Tgmyl7:actn2 tdEos larvae at 72 hpf were collected and digested with protease solution PBS with 5 mg/ml trypsin and 1 mM EDTA  pH 8.0 for 1 h. Digestion was terminated with stop solution PBS with 30% fetal bovine serum and 6 mL calcium chloride. mCherry  or tdEos positive cells were collected as cardiomyocytes using a FACS Aria III cell sorter BD Bioscience Total RNAs were prepared from mCherry  or tdEos positive cells using a NucleoSpin XS kit Macherey Nagel according to the manufacture's instruction. Reverse transcription RT and cDNA library preparation were performed with a SMARTer Ultra Low RNA kit Clontech. cDNA was fragmented with a Covaris S 220 instrument Covaris. Subsequently  the sample was end repaired  dA tailed  adaptor ligated  and then subjected to PCR by using a NEBNext DNA Library Preparation and NEBNext Multiplex oligos for Illumina New England BioLabs.,Sample1,SAMEA27135418,Department of Cell Biology National Cerebral and Cardiovascular Center Research Institute,ENA first public:2016 12 20|ENA last update:2016 12 15|External Id:SAMEA27135418|INSDC center alias:Department of Cell Biology National Cerebral and Cardiovascular Center Research Institute|INSDC center name:Department of Cell Biology National Cerebral and Cardiovascular Center Research Institute|INSDC first public:2016 12 20T17:02:09Z|INSDC last update:2016 12 15T11:23:10Z|INSDC status:public|Submitter Id:E MTAB 5323:Sample1|broker name:ArrayExpress|cell type:cardiac myocyte|common name:zebrafish|developmental stage:72 hpf|genotype:Tgmyl7:Nls mCherryncv11Tg|sample name:E MTAB 5323:Sample1,,,,,,,,,Illumina MiSeq sequencing; RNA Seq analyses of zebrafish cardiomyocytes at 72 hpf,E MTAB 5323:Sample1 s,Sample1 s,RNA Seq analyses of zebrafish cardiomyocytes at 72 hpf,To obtain only cardiomyocytes from the heart  two transgenic zebrafish lines were established; Tgmyl7:NLS mCherry and Tgmyl7:actn2 tdEos. Using cardiac myosin light chain myl7 promoter  nuclear localization signal conjugated monomeric Cherry or actinin alpha 2 conjugated tandem Eos was expressed in cardiomyocytes.   Hearts resected from Tgmyl7:NLS mCherry or Tgmyl7:actn2 tdEos larvae at 72 hpf were collected and digested with protease solution PBS with 5 mg/ml trypsin and 1 mM EDTA  pH 8.0 for 1 h. Digestion was terminated with stop solution PBS with 30% fetal bovine serum and 6 mL calcium chloride. mCherry  or tdEos positive cells were collected as cardiomyocytes using a FACS Aria III cell sorter BD Bioscience Total RNAs were prepared from mCherry  or tdEos positive cells using a NucleoSpin XS kit Macherey Nagel according to the manufacture’s instruction. Reverse transcription RT and cDNA library preparation were performed with a SMARTer Ultra Low RNA kit Clontech. cDNA was fragmented with a Covaris S 220 instrument Covaris. Subsequently  the sample was end repaired  dA tailed  adaptor ligated  and then subjected to PCR by using a NEBNext DNA Library Preparation and NEBNext Multiplex oligos for Illumina New England BioLabs.,Experimental Factor: Tgmyl7:Nls mCherryncv11Tg:genotype,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,SINGLE,ILLUMINA,Illumina MiSeq,,ERP020578,Illumina MiSeq sequencing; RNA Seq analyses of zebrafish cardiomyocytes at 72 hpf,ENA FIRST PUBLIC:2016 12 20|ENA LAST UPDATE:2018 11 16,mochizukis_lab_myl7_NLSmCHerry_72h_02.fastq.gz,fastq,766251339.0,10284347.0,E MTAB 5323:Sample1 1,0:0 1:74.51,A:214234414;C:174215653;G:180382062;T:197361982;N:57228,0,74,,,214234414,174215653,180382062,197361982,57228,ERX1826021,ERS1474295,ERA776061,Department of Cell Biology National Cerebral and Cardiovascular Center Research Institute|European Nucleotide Archive,Department of Cell Biology National Cerebral and Cardiovascular Center Research Institute|European Nucleotide Archive,1,0.87766,,0.21561,,0.77477,,0.53919,,73,,B,,usable mapping rate,illumina,miseq,full_length,poly_a,nebnext,bulk,unknown,unknown,,Japan,2016-12-15,Larval,Larval,Heart,Cardiovascular System