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run_metadata

198 rows where experiment.library_selection = "Oligo-dT", technology = "unknown" and tissue_curation_coarse = "Surface Structure"

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devstage_curation_coarse 6

devstage_curation 6

tissue_curation 2

experiment.library_layout 2

tissue_curation_coarse 1

  • Surface Structure · 198 ✖

technology 1

  • unknown · 198 ✖

experiment.platform 1

experiment.library_strategy 1

experiment.library_source 1

experiment.library_selection 1

  • Oligo-dT · 198 ✖
Link 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
3759 3759 ERR1294279 ERX1365625 ERS1067820 ERP014370 PRJEB12848 Danio rerio Mau mutants skin Transcriptome ena-STUDY-MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY-25-02-2016-18:42:00:594-265 Other Mau/Aqp3a dominant mutants of zebrafish Danio rerio are characterized by broken stripes and short fins. To identify signaling pathways affected by mau mutations and leading to pigment patterning defects we analyze skin transcriptome of adult wild type TU fish and two mau alleles. ENA FIRST PUBLIC:2016 05 24|ENA LAST UPDATE:2016 02 25     Mau tVBU1/tVBU1 skin transcriptome SAMEA3880686 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY ENA first public:2016 05 24|ENA last update:2016 02 25|External Id:SAMEA3880686|INSDC center alias:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC center name:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC first public:2016 05 24T17:02:01Z|INSDC last update:2016 02 25T18:42:06Z|INSDC status:public|Submitter Id:VBU1|allele:mau tVBU1/tVBU1|common name:zebrafish|dev stage:adult|sample name:VBU1|tissue type:skin                 Illumina HiSeq 2000 sequencing ena EXPERIMENT MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 25 02 2016 18:41:58:670 9 vbu13 1 Illumina TruSeq RNA   RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2000   ERP014370 Illumina HiSeq 2000 sequencing ENA FIRST PUBLIC:2016 05 24|ENA LAST UPDATE:2018 11 16 vbu13_GCCAAT_L008_R1_001.fastq.gz fastq 2376143675.0 23526175.0 ena RUN MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 25 02 2016 18:41:58:670 9 0:101 A:655940769;C:534990399;G:527934646;T:655773043;N:1504818 101       655940769 534990399 527934646 655773043 1504818 ERX1365625 ERS1067820 ERA567249 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|European Nucleotide Archive MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 1 0.95443   0.10666   0.73176   0.50978   101   B   usable mapping rate illumina hiseq_era unknown poly_a trueseq bulk unknown unknown   Germany 2016-02-25 Adult Adult Skin Surface Structure
3760 3760 ERR1294278 ERX1365624 ERS1067820 ERP014370 PRJEB12848 Danio rerio Mau mutants skin Transcriptome ena-STUDY-MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY-25-02-2016-18:42:00:594-265 Other Mau/Aqp3a dominant mutants of zebrafish Danio rerio are characterized by broken stripes and short fins. To identify signaling pathways affected by mau mutations and leading to pigment patterning defects we analyze skin transcriptome of adult wild type TU fish and two mau alleles. ENA FIRST PUBLIC:2016 05 24|ENA LAST UPDATE:2016 02 25     Mau tVBU1/tVBU1 skin transcriptome SAMEA3880686 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY ENA first public:2016 05 24|ENA last update:2016 02 25|External Id:SAMEA3880686|INSDC center alias:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC center name:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC first public:2016 05 24T17:02:01Z|INSDC last update:2016 02 25T18:42:06Z|INSDC status:public|Submitter Id:VBU1|allele:mau tVBU1/tVBU1|common name:zebrafish|dev stage:adult|sample name:VBU1|tissue type:skin                 Illumina HiSeq 2000 sequencing ena EXPERIMENT MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 25 02 2016 18:41:58:670 8 vbu12 1 Illumina TruSeq RNA   RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2000   ERP014370 Illumina HiSeq 2000 sequencing ENA FIRST PUBLIC:2016 05 24|ENA LAST UPDATE:2018 11 16 vbu12_GTGAAA_L008_R1_001.fastq.gz fastq 1449181835.0 14348335.0 ena RUN MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 25 02 2016 18:41:58:670 8 0:101 A:399518584;C:327615685;G:323868050;T:397240465;N:939051 101       399518584 327615685 323868050 397240465 939051 ERX1365624 ERS1067820 ERA567249 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|European Nucleotide Archive MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 1 0.95893   0.09315   0.73464   0.48744   101   B   usable mapping rate illumina hiseq_era unknown poly_a trueseq bulk unknown unknown   Germany 2016-02-25 Adult Adult Skin Surface Structure
3761 3761 ERR1294277 ERX1365623 ERS1067820 ERP014370 PRJEB12848 Danio rerio Mau mutants skin Transcriptome ena-STUDY-MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY-25-02-2016-18:42:00:594-265 Other Mau/Aqp3a dominant mutants of zebrafish Danio rerio are characterized by broken stripes and short fins. To identify signaling pathways affected by mau mutations and leading to pigment patterning defects we analyze skin transcriptome of adult wild type TU fish and two mau alleles. ENA FIRST PUBLIC:2016 05 24|ENA LAST UPDATE:2016 02 25     Mau tVBU1/tVBU1 skin transcriptome SAMEA3880686 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY ENA first public:2016 05 24|ENA last update:2016 02 25|External Id:SAMEA3880686|INSDC center alias:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC center name:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC first public:2016 05 24T17:02:01Z|INSDC last update:2016 02 25T18:42:06Z|INSDC status:public|Submitter Id:VBU1|allele:mau tVBU1/tVBU1|common name:zebrafish|dev stage:adult|sample name:VBU1|tissue type:skin                 Illumina HiSeq 2000 sequencing ena EXPERIMENT MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 25 02 2016 18:41:58:670 7 vbu11 1 Illumina TruSeq RNA   RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2000   ERP014370 Illumina HiSeq 2000 sequencing ENA FIRST PUBLIC:2016 05 24|ENA LAST UPDATE:2018 11 16 vbu11_GTCCGC_L008_R1_001.fastq.gz fastq 1455235169.0 14408269.0 ena RUN MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 25 02 2016 18:41:58:670 7 0:101 A:392100064;C:337980617;G:331091626;T:393178582;N:884280 101       392100064 337980617 331091626 393178582 884280 ERX1365623 ERS1067820 ERA567249 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|European Nucleotide Archive MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 1 0.95485   0.08016   0.72845   0.47549   101   B   usable mapping rate illumina hiseq_era unknown poly_a trueseq bulk unknown unknown   Germany 2016-02-25 Adult Adult Skin Surface Structure
3762 3762 ERR1294276 ERX1365622 ERS1067819 ERP014370 PRJEB12848 Danio rerio Mau mutants skin Transcriptome ena-STUDY-MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY-25-02-2016-18:42:00:594-265 Other Mau/Aqp3a dominant mutants of zebrafish Danio rerio are characterized by broken stripes and short fins. To identify signaling pathways affected by mau mutations and leading to pigment patterning defects we analyze skin transcriptome of adult wild type TU fish and two mau alleles. ENA FIRST PUBLIC:2016 05 24|ENA LAST UPDATE:2016 02 25     Mau tVE1/tVE1 skin transcriptome SAMEA3880685 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY ENA first public:2016 05 24|ENA last update:2016 02 25|External Id:SAMEA3880685|INSDC center alias:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC center name:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC first public:2016 05 24T17:02:01Z|INSDC last update:2016 02 25T18:42:06Z|INSDC status:public|Submitter Id:VE1|allele:mau tVE1/tVE1|common name:zebrafish|dev stage:adult|sample name:VE1|tissue type:skin                 Illumina HiSeq 2000 sequencing ena EXPERIMENT MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 25 02 2016 18:41:58:670 6 ve13 1 Illumina TruSeq RNA   RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2000   ERP014370 Illumina HiSeq 2000 sequencing ENA FIRST PUBLIC:2016 05 24|ENA LAST UPDATE:2018 11 16 ve13_CCGTCC_L008_R1_001.fastq.gz fastq 1029294030.0 10191030.0 ena RUN MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 25 02 2016 18:41:58:670 6 0:101 A:284612731;C:231451012;G:228443320;T:284135536;N:651431 101       284612731 231451012 228443320 284135536 651431 ERX1365622 ERS1067819 ERA567249 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|European Nucleotide Archive MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 1 0.93287   0.10726   0.72585   0.4913   101   B   usable mapping rate illumina hiseq_era unknown poly_a trueseq bulk unknown unknown   Germany 2016-02-25 Adult Adult Skin Surface Structure
3763 3763 ERR1294275 ERX1365621 ERS1067819 ERP014370 PRJEB12848 Danio rerio Mau mutants skin Transcriptome ena-STUDY-MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY-25-02-2016-18:42:00:594-265 Other Mau/Aqp3a dominant mutants of zebrafish Danio rerio are characterized by broken stripes and short fins. To identify signaling pathways affected by mau mutations and leading to pigment patterning defects we analyze skin transcriptome of adult wild type TU fish and two mau alleles. ENA FIRST PUBLIC:2016 05 24|ENA LAST UPDATE:2016 02 25     Mau tVE1/tVE1 skin transcriptome SAMEA3880685 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY ENA first public:2016 05 24|ENA last update:2016 02 25|External Id:SAMEA3880685|INSDC center alias:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC center name:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC first public:2016 05 24T17:02:01Z|INSDC last update:2016 02 25T18:42:06Z|INSDC status:public|Submitter Id:VE1|allele:mau tVE1/tVE1|common name:zebrafish|dev stage:adult|sample name:VE1|tissue type:skin                 Illumina HiSeq 2000 sequencing ena EXPERIMENT MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 25 02 2016 18:41:58:669 5 ve12 1 Illumina TruSeq RNA   RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2000   ERP014370 Illumina HiSeq 2000 sequencing ENA FIRST PUBLIC:2016 05 24|ENA LAST UPDATE:2018 11 16 ve12_ATGTCA_L008_R1_001.fastq.gz fastq 1446322222.0 14320022.0 ena RUN MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 25 02 2016 18:41:58:669 5 0:101 A:400821160;C:324210104;G:320286425;T:400078485;N:926048 101       400821160 324210104 320286425 400078485 926048 ERX1365621 ERS1067819 ERA567249 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|European Nucleotide Archive MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 1 0.92778   0.09489   0.73093   0.48493   101   B   usable mapping rate illumina hiseq_era unknown poly_a trueseq bulk unknown unknown   Germany 2016-02-25 Adult Adult Skin Surface Structure
3764 3764 ERR1294274 ERX1365620 ERS1067819 ERP014370 PRJEB12848 Danio rerio Mau mutants skin Transcriptome ena-STUDY-MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY-25-02-2016-18:42:00:594-265 Other Mau/Aqp3a dominant mutants of zebrafish Danio rerio are characterized by broken stripes and short fins. To identify signaling pathways affected by mau mutations and leading to pigment patterning defects we analyze skin transcriptome of adult wild type TU fish and two mau alleles. ENA FIRST PUBLIC:2016 05 24|ENA LAST UPDATE:2016 02 25     Mau tVE1/tVE1 skin transcriptome SAMEA3880685 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY ENA first public:2016 05 24|ENA last update:2016 02 25|External Id:SAMEA3880685|INSDC center alias:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC center name:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC first public:2016 05 24T17:02:01Z|INSDC last update:2016 02 25T18:42:06Z|INSDC status:public|Submitter Id:VE1|allele:mau tVE1/tVE1|common name:zebrafish|dev stage:adult|sample name:VE1|tissue type:skin                 Illumina HiSeq 2000 sequencing ena EXPERIMENT MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 25 02 2016 18:41:58:669 4 ve11 1 Illumina TruSeq RNA   RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2000   ERP014370 Illumina HiSeq 2000 sequencing ENA FIRST PUBLIC:2016 05 24|ENA LAST UPDATE:2018 11 16 ve11_AGTTCC_L008_R1_001.fastq.gz fastq 2117238861.0 20962761.0 ena RUN MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 25 02 2016 18:41:58:669 4 0:101 A:591654664;C:469803769;G:462550117;T:591863795;N:1366516 101       591654664 469803769 462550117 591863795 1366516 ERX1365620 ERS1067819 ERA567249 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|European Nucleotide Archive MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 1 0.93146   0.09666   0.73501   0.48749   101   B   usable mapping rate illumina hiseq_era unknown poly_a trueseq bulk unknown unknown   Germany 2016-02-25 Adult Adult Skin Surface Structure
3765 3765 ERR1294273 ERX1365619 ERS1067818 ERP014370 PRJEB12848 Danio rerio Mau mutants skin Transcriptome ena-STUDY-MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY-25-02-2016-18:42:00:594-265 Other Mau/Aqp3a dominant mutants of zebrafish Danio rerio are characterized by broken stripes and short fins. To identify signaling pathways affected by mau mutations and leading to pigment patterning defects we analyze skin transcriptome of adult wild type TU fish and two mau alleles. ENA FIRST PUBLIC:2016 05 24|ENA LAST UPDATE:2016 02 25     WT skin transcriptome SAMEA3880684 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY ENA first public:2016 05 24|ENA last update:2016 02 25|External Id:SAMEA3880684|INSDC center alias:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC center name:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC first public:2016 05 24T17:02:01Z|INSDC last update:2016 02 25T18:42:06Z|INSDC status:public|Submitter Id:WT|allele:mau +/+|common name:zebrafish|dev stage:adult|sample name:WT|tissue type:skin                 Illumina HiSeq 2000 sequencing ena EXPERIMENT MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 25 02 2016 18:41:58:669 3 wt3 1 Illumina TruSeq RNA   RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2000   ERP014370 Illumina HiSeq 2000 sequencing ENA FIRST PUBLIC:2016 05 24|ENA LAST UPDATE:2018 11 16 wt3_AGTCAA_L008_R1_001.fastq.gz fastq 2631687411.0 26056311.0 ena RUN MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 25 02 2016 18:41:58:669 3 0:101 A:734843629;C:584316000;G:577487406;T:733356850;N:1683526 101       734843629 584316000 577487406 733356850 1683526 ERX1365619 ERS1067818 ERA567249 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|European Nucleotide Archive MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 1 0.95114   0.1036   0.72474   0.48261   101   B   usable mapping rate illumina hiseq_era unknown poly_a trueseq bulk unknown unknown   Germany 2016-02-25 Adult Adult Skin Surface Structure
3766 3766 ERR1294272 ERX1365618 ERS1067818 ERP014370 PRJEB12848 Danio rerio Mau mutants skin Transcriptome ena-STUDY-MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY-25-02-2016-18:42:00:594-265 Other Mau/Aqp3a dominant mutants of zebrafish Danio rerio are characterized by broken stripes and short fins. To identify signaling pathways affected by mau mutations and leading to pigment patterning defects we analyze skin transcriptome of adult wild type TU fish and two mau alleles. ENA FIRST PUBLIC:2016 05 24|ENA LAST UPDATE:2016 02 25     WT skin transcriptome SAMEA3880684 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY ENA first public:2016 05 24|ENA last update:2016 02 25|External Id:SAMEA3880684|INSDC center alias:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC center name:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC first public:2016 05 24T17:02:01Z|INSDC last update:2016 02 25T18:42:06Z|INSDC status:public|Submitter Id:WT|allele:mau +/+|common name:zebrafish|dev stage:adult|sample name:WT|tissue type:skin                 Illumina HiSeq 2000 sequencing ena EXPERIMENT MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 25 02 2016 18:41:58:669 2 wt2 1 Illumina TruSeq RNA   RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2000   ERP014370 Illumina HiSeq 2000 sequencing ENA FIRST PUBLIC:2016 05 24|ENA LAST UPDATE:2018 11 16 wt2_CTTGTA_L008_R1_001.fastq.gz fastq 2093443463.0 20727163.0 ena RUN MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 25 02 2016 18:41:58:669 2 0:101 A:607582034;C:442802229;G:437957089;T:603752294;N:1349817 101       607582034 442802229 437957089 603752294 1349817 ERX1365618 ERS1067818 ERA567249 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|European Nucleotide Archive MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 1 0.94792   0.10892   0.73277   0.51067   101   B   usable mapping rate illumina hiseq_era unknown poly_a trueseq bulk unknown unknown   Germany 2016-02-25 Adult Adult Skin Surface Structure
3767 3767 ERR1294271 ERX1365617 ERS1067818 ERP014370 PRJEB12848 Danio rerio Mau mutants skin Transcriptome ena-STUDY-MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY-25-02-2016-18:42:00:594-265 Other Mau/Aqp3a dominant mutants of zebrafish Danio rerio are characterized by broken stripes and short fins. To identify signaling pathways affected by mau mutations and leading to pigment patterning defects we analyze skin transcriptome of adult wild type TU fish and two mau alleles. ENA FIRST PUBLIC:2016 05 24|ENA LAST UPDATE:2016 02 25     WT skin transcriptome SAMEA3880684 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY ENA first public:2016 05 24|ENA last update:2016 02 25|External Id:SAMEA3880684|INSDC center alias:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC center name:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC first public:2016 05 24T17:02:01Z|INSDC last update:2016 02 25T18:42:06Z|INSDC status:public|Submitter Id:WT|allele:mau +/+|common name:zebrafish|dev stage:adult|sample name:WT|tissue type:skin                 Illumina HiSeq 2000 sequencing ena EXPERIMENT MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 25 02 2016 18:41:58:668 1 wt1 1 Illumina TruSeq RNA   RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina HiSeq 2000   ERP014370 Illumina HiSeq 2000 sequencing ENA FIRST PUBLIC:2016 05 24|ENA LAST UPDATE:2018 11 16 wt1_CAGATC_L008_R1_001.fastq.gz fastq 1701561241.0 16847141.0 ena RUN MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 25 02 2016 18:41:58:668 1 0:101 A:505358711;C:348893979;G:343445186;T:502880170;N:983195 101       505358711 348893979 343445186 502880170 983195 ERX1365617 ERS1067818 ERA567249 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|European Nucleotide Archive MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 1 0.94565   0.13032   0.73669   0.50473   101   B   usable mapping rate illumina hiseq_era unknown poly_a trueseq bulk unknown unknown   Germany 2016-02-25 Adult Adult Skin Surface Structure
9770 9770 ERR5838122 ERX5487778 ERS6337138 ERP119543 PRJEB36360 Transcriptomic analysis of adult skin from 9 Danio species ena-STUDY-MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY-22-01-2020-08:38:04:562-27 Other Transcriptomic analysis was carried out on adult skin of the flanks for the following nine Danio species: Danio rerio Danio aesculapii Danio nigrofasciatus Danio tinwini Danio kyathit Danio albolineatus Danio choprae Danio margaritatus and Danio erythromicron. Five replicates per species were carried out. Each replicate was derived from a single fish with skin samples coming from both flanks. Paired end stranded RNA Seq was then carried out. ENA FIRST PUBLIC:2020 03 21|ENA LAST UPDATE:2021 04 21 PUBMED:33277491 Transcriptomic analysis was carried out on adult skin of the flanks for the following nine Danio species: Danio rerio Danio aesculapii Danio nigrofasciatus Danio tinwini Danio kyathit Danio albolineatus Danio choprae Danio margaritatus and Danio erythromicron. Five replicates per species were carried out. Each replicate was derived from a single fish with skin samples coming from both flanks. Paired end stranded RNA Seq was then carried out. Transcriptomic analysis of adult skin from 9 Danio species SAMEA8652584 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY ENA first public:2021 04 30|ENA last update:2021 04 29|External Id:SAMEA8652584|INSDC center alias:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC center name:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC first public:2021 04 30T00:30:20Z|INSDC last update:2021 04 29T02:45:00Z|INSDC status:public|Submitter Id:05 Danio rerio adult skin 5|collected by:Marco Podobnik|collection date:2019 08 23|common name:zebrafish|dev stage:adult|identified by:Marco Podobnik|isolation source:Tuebingen|sample name:05 Danio rerio adult skin 5|sex:male|tissue type:skin                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 28 04 2021 08:27:34:651 5 unspecified 1 TruSeq stranded mRNA Illumina   RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP119543 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2021 04 30|ENA LAST UPDATE:2021 04 29 S1385Nr5.1.fastq.gz S1385Nr5.2.fastq.gz fastq fastq 6912206316.0 34306523.0 ena RUN MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 28 04 2021 08:27:34:651 5 0:100.74 1:100.74 A:1853779551;C:1607929988;G:1658402611;T:1792045990;N:48176 100 100     1853779551 1607929988 1658402611 1792045990 48176 ERX5487778 ERS6337138 ERA4129786 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|European Nucleotide Archive MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 2 0.96095 0.962 0.08049 0.07821 0.70654 0.70926 0.51398 0.51064 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Germany 2020-03-21 Adult Adult Skin Surface Structure
9771 9771 ERR5838121 ERX5487777 ERS6337136 ERP119543 PRJEB36360 Transcriptomic analysis of adult skin from 9 Danio species ena-STUDY-MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY-22-01-2020-08:38:04:562-27 Other Transcriptomic analysis was carried out on adult skin of the flanks for the following nine Danio species: Danio rerio Danio aesculapii Danio nigrofasciatus Danio tinwini Danio kyathit Danio albolineatus Danio choprae Danio margaritatus and Danio erythromicron. Five replicates per species were carried out. Each replicate was derived from a single fish with skin samples coming from both flanks. Paired end stranded RNA Seq was then carried out. ENA FIRST PUBLIC:2020 03 21|ENA LAST UPDATE:2021 04 21 PUBMED:33277491 Transcriptomic analysis was carried out on adult skin of the flanks for the following nine Danio species: Danio rerio Danio aesculapii Danio nigrofasciatus Danio tinwini Danio kyathit Danio albolineatus Danio choprae Danio margaritatus and Danio erythromicron. Five replicates per species were carried out. Each replicate was derived from a single fish with skin samples coming from both flanks. Paired end stranded RNA Seq was then carried out. Transcriptomic analysis of adult skin from 9 Danio species SAMEA8652582 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY ENA first public:2021 04 30|ENA last update:2021 04 29|External Id:SAMEA8652582|INSDC center alias:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC center name:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC first public:2021 04 30T00:30:20Z|INSDC last update:2021 04 29T02:45:00Z|INSDC status:public|Submitter Id:04 Danio rerio adult skin 4|collected by:Marco Podobnik|collection date:2019 08 23|common name:zebrafish|dev stage:adult|identified by:Marco Podobnik|isolation source:Tuebingen|sample name:04 Danio rerio adult skin 4|sex:male|tissue type:skin                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 28 04 2021 08:27:34:651 4 unspecified 1 TruSeq stranded mRNA Illumina   RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP119543 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2021 04 30|ENA LAST UPDATE:2021 04 29 S1385Nr4.1.fastq.gz S1385Nr4.2.fastq.gz fastq fastq 6161942050.0 30595009.0 ena RUN MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 28 04 2021 08:27:34:651 4 0:100.70 1:100.70 A:1642716052;C:1446485458;G:1490121106;T:1582576605;N:42829 100 100     1642716052 1446485458 1490121106 1582576605 42829 ERX5487777 ERS6337136 ERA4129786 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|European Nucleotide Archive MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 2 0.96544 0.96564 0.07368 0.07303 0.70822 0.71092 0.50154 0.50781 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Germany 2020-03-21 Adult Adult Skin Surface Structure
9772 9772 ERR5838120 ERX5487776 ERS6337133 ERP119543 PRJEB36360 Transcriptomic analysis of adult skin from 9 Danio species ena-STUDY-MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY-22-01-2020-08:38:04:562-27 Other Transcriptomic analysis was carried out on adult skin of the flanks for the following nine Danio species: Danio rerio Danio aesculapii Danio nigrofasciatus Danio tinwini Danio kyathit Danio albolineatus Danio choprae Danio margaritatus and Danio erythromicron. Five replicates per species were carried out. Each replicate was derived from a single fish with skin samples coming from both flanks. Paired end stranded RNA Seq was then carried out. ENA FIRST PUBLIC:2020 03 21|ENA LAST UPDATE:2021 04 21 PUBMED:33277491 Transcriptomic analysis was carried out on adult skin of the flanks for the following nine Danio species: Danio rerio Danio aesculapii Danio nigrofasciatus Danio tinwini Danio kyathit Danio albolineatus Danio choprae Danio margaritatus and Danio erythromicron. Five replicates per species were carried out. Each replicate was derived from a single fish with skin samples coming from both flanks. Paired end stranded RNA Seq was then carried out. Transcriptomic analysis of adult skin from 9 Danio species SAMEA8652579 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY ENA first public:2021 04 30|ENA last update:2021 04 29|External Id:SAMEA8652579|INSDC center alias:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC center name:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC first public:2021 04 30T00:30:20Z|INSDC last update:2021 04 29T02:45:00Z|INSDC status:public|Submitter Id:03 Danio rerio adult skin 3|collected by:Marco Podobnik|collection date:2019 08 23|common name:zebrafish|dev stage:adult|identified by:Marco Podobnik|isolation source:Tuebingen|sample name:03 Danio rerio adult skin 3|sex:female|tissue type:skin                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 28 04 2021 08:27:34:651 3 unspecified 1 TruSeq stranded mRNA Illumina   RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP119543 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2021 04 30|ENA LAST UPDATE:2021 04 29 S1385Nr3.1.fastq.gz S1385Nr3.2.fastq.gz fastq fastq 7422881394.0 36866805.0 ena RUN MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 28 04 2021 08:27:34:651 3 0:100.67 1:100.67 A:1950275527;C:1768648993;G:1827362519;T:1876542858;N:51497 100 100     1950275527 1768648993 1827362519 1876542858 51497 ERX5487776 ERS6337133 ERA4129786 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|European Nucleotide Archive MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 2 0.97031 0.97047 0.04915 0.04817 0.71459 0.71894 0.51089 0.5097 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Germany 2020-03-21 Adult Adult Skin Surface Structure
9773 9773 ERR5838119 ERX5487775 ERS6337132 ERP119543 PRJEB36360 Transcriptomic analysis of adult skin from 9 Danio species ena-STUDY-MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY-22-01-2020-08:38:04:562-27 Other Transcriptomic analysis was carried out on adult skin of the flanks for the following nine Danio species: Danio rerio Danio aesculapii Danio nigrofasciatus Danio tinwini Danio kyathit Danio albolineatus Danio choprae Danio margaritatus and Danio erythromicron. Five replicates per species were carried out. Each replicate was derived from a single fish with skin samples coming from both flanks. Paired end stranded RNA Seq was then carried out. ENA FIRST PUBLIC:2020 03 21|ENA LAST UPDATE:2021 04 21 PUBMED:33277491 Transcriptomic analysis was carried out on adult skin of the flanks for the following nine Danio species: Danio rerio Danio aesculapii Danio nigrofasciatus Danio tinwini Danio kyathit Danio albolineatus Danio choprae Danio margaritatus and Danio erythromicron. Five replicates per species were carried out. Each replicate was derived from a single fish with skin samples coming from both flanks. Paired end stranded RNA Seq was then carried out. Transcriptomic analysis of adult skin from 9 Danio species SAMEA8652578 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY ENA first public:2021 04 30|ENA last update:2021 04 29|External Id:SAMEA8652578|INSDC center alias:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC center name:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC first public:2021 04 30T00:30:20Z|INSDC last update:2021 04 29T02:45:00Z|INSDC status:public|Submitter Id:02 Danio rerio adult skin 2|collected by:Marco Podobnik|collection date:2019 08 23|common name:zebrafish|dev stage:adult|identified by:Marco Podobnik|isolation source:Tuebingen|sample name:02 Danio rerio adult skin 2|sex:female|tissue type:skin                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 28 04 2021 08:27:34:651 2 unspecified 1 TruSeq stranded mRNA Illumina   RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP119543 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2021 04 30|ENA LAST UPDATE:2021 04 29 S1385Nr2.1.fastq.gz S1385Nr2.2.fastq.gz fastq fastq 7006718028.0 34786110.0 ena RUN MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 28 04 2021 08:27:34:651 2 0:100.71 1:100.71 A:1847371523;C:1665346769;G:1712373266;T:1781565768;N:60702 100 100     1847371523 1665346769 1712373266 1781565768 60702 ERX5487775 ERS6337132 ERA4129786 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|European Nucleotide Archive MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 2 0.96136 0.96039 0.05872 0.05752 0.70325 0.70674 0.46717 0.48218 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Germany 2020-03-21 Adult Adult Skin Surface Structure
9774 9774 ERR5838118 ERX5487774 ERS6337063 ERP119543 PRJEB36360 Transcriptomic analysis of adult skin from 9 Danio species ena-STUDY-MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY-22-01-2020-08:38:04:562-27 Other Transcriptomic analysis was carried out on adult skin of the flanks for the following nine Danio species: Danio rerio Danio aesculapii Danio nigrofasciatus Danio tinwini Danio kyathit Danio albolineatus Danio choprae Danio margaritatus and Danio erythromicron. Five replicates per species were carried out. Each replicate was derived from a single fish with skin samples coming from both flanks. Paired end stranded RNA Seq was then carried out. ENA FIRST PUBLIC:2020 03 21|ENA LAST UPDATE:2021 04 21 PUBMED:33277491 Transcriptomic analysis was carried out on adult skin of the flanks for the following nine Danio species: Danio rerio Danio aesculapii Danio nigrofasciatus Danio tinwini Danio kyathit Danio albolineatus Danio choprae Danio margaritatus and Danio erythromicron. Five replicates per species were carried out. Each replicate was derived from a single fish with skin samples coming from both flanks. Paired end stranded RNA Seq was then carried out. Transcriptomic analysis of adult skin from 9 Danio species SAMEA8652509 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY ENA first public:2021 04 30|ENA last update:2021 04 29|External Id:SAMEA8652509|INSDC center alias:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC center name:MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|INSDC first public:2021 04 30T00:30:20Z|INSDC last update:2021 04 29T02:45:00Z|INSDC status:public|Submitter Id:01 Danio rerio adult skin 1|collected by:Marco Podobnik|collection date:2019 08 23|common name:zebrafish|dev stage:adult|identified by:Marco Podobnik|isolation source:Tuebingen|sample name:01 Danio rerio adult skin 1|sex:male|tissue type:skin                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 28 04 2021 08:27:34:651 1 unspecified 1 TruSeq stranded mRNA Illumina   RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP119543 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2021 04 30|ENA LAST UPDATE:2021 04 29 S1385Nr1.1.fastq.gz S1385Nr1.2.fastq.gz fastq fastq 6586457266.0 32719900.0 ena RUN MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 28 04 2021 08:27:34:651 1 0:100.65 1:100.65 A:1709547533;C:1593125315;G:1617088678;T:1666650824;N:44916 100 100     1709547533 1593125315 1617088678 1666650824 44916 ERX5487774 ERS6337063 ERA4129786 MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY|European Nucleotide Archive MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY 2 0.9531 0.95366 0.07763 0.07567 0.71384 0.71634 0.52409 0.52475 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Germany 2020-03-21 Adult Adult Skin Surface Structure
11148 11148 ERR10034072 ERX9574476 ERS12562187 ERP140005 PRJEB55122 Danio developmental transcriptomes ca4a518e-aaf7-42d9-9758-352aac808809 Other Transcriptomic analysis of four different developmental stages of four Danio species D. rerio D. aesculapii Danio aff. kyathit striped also known as Danio quagga and D. albolineatus. Five biological replicates were sampled for every developmental stage of a species. ENA FIRST PUBLIC:2022 08 05|ENA LAST UPDATE:2022 08 08   Metamorphic tissue without xxx from Danio rerio Drerio metamorphic 5 SAMEA110464159 max planck institute for biology ENA FIRST PUBLIC:2022 08 08|ENA LAST UPDATE:2022 08 08|External Id:SAMEA110464159|INSDC center alias:MAX PLANCK INSTITUTE FOR BIOLOGY|INSDC center name:max planck institute for biology|INSDC first public:2022 08 08T04:26:46Z|INSDC last update:2022 08 08T04:26:46Z|INSDC status:public|Submitter Id:SAMPLE25|collected by:Marco Podobnik|collection date:2018 06 27|common name:zebrafish|dev stage:Metamorphic|identified by:Marco Podobnik|sample name:SAMPLE25|sex:not provided|tissue type:whole body without xxx                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 05 08 2022 14:25:08:835 19178 unspecified 1 Illumina TruSeq DNA Nano Kit   RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP140005 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2022 08 08|ENA LAST UPDATE:2022 08 08 S879Nr25.1.fastq.gz S879Nr25.2.fastq.gz fastq fastq 10120435126.0 50403985.0 ena RUN TAB 05 08 2022 14:25:08:835 19179 0:100.39 1:100.39 A:2679131890;C:2420708190;G:2483153503;T:2537307238;N:134305 100 100     2679131890 2420708190 2483153503 2537307238 134305 ERX9574476 ERS12562187 ERA16814395 max planck institute for biology|European Nucleotide Archive max planck institute for biology 2 0.96973 0.97106 0.04979 0.04949 0.71252 0.71654 0.4806 0.49338 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Germany 2022-08-05 Undetermined Undetermined Trunk Surface Structure
11149 11149 ERR10034071 ERX9574475 ERS12562186 ERP140005 PRJEB55122 Danio developmental transcriptomes ca4a518e-aaf7-42d9-9758-352aac808809 Other Transcriptomic analysis of four different developmental stages of four Danio species D. rerio D. aesculapii Danio aff. kyathit striped also known as Danio quagga and D. albolineatus. Five biological replicates were sampled for every developmental stage of a species. ENA FIRST PUBLIC:2022 08 05|ENA LAST UPDATE:2022 08 08   Metamorphic tissue without xxx from Danio rerio Drerio metamorphic 4 SAMEA110464158 max planck institute for biology ENA FIRST PUBLIC:2022 08 08|ENA LAST UPDATE:2022 08 08|External Id:SAMEA110464158|INSDC center alias:MAX PLANCK INSTITUTE FOR BIOLOGY|INSDC center name:max planck institute for biology|INSDC first public:2022 08 08T04:26:46Z|INSDC last update:2022 08 08T04:26:46Z|INSDC status:public|Submitter Id:SAMPLE24|collected by:Marco Podobnik|collection date:2018 06 27|common name:zebrafish|dev stage:Metamorphic|identified by:Marco Podobnik|sample name:SAMPLE24|sex:not provided|tissue type:whole body without xxx                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 05 08 2022 14:25:08:835 19176 unspecified 1 Illumina TruSeq DNA Nano Kit   RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP140005 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2022 08 08|ENA LAST UPDATE:2022 08 08 S879Nr24.1.fastq.gz S879Nr24.2.fastq.gz fastq fastq 7845661906.0 39121993.0 ena RUN TAB 05 08 2022 14:25:08:835 19177 0:100.27 1:100.27 A:2096079479;C:1862247618;G:1929220494;T:1958006859;N:107456 100 100     2096079479 1862247618 1929220494 1958006859 107456 ERX9574475 ERS12562186 ERA16814395 max planck institute for biology|European Nucleotide Archive max planck institute for biology 2 0.96989 0.96986 0.04901 0.04902 0.71599 0.72301 0.48965 0.48827 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Germany 2022-08-05 Undetermined Undetermined Trunk Surface Structure
11150 11150 ERR10034070 ERX9574474 ERS12562185 ERP140005 PRJEB55122 Danio developmental transcriptomes ca4a518e-aaf7-42d9-9758-352aac808809 Other Transcriptomic analysis of four different developmental stages of four Danio species D. rerio D. aesculapii Danio aff. kyathit striped also known as Danio quagga and D. albolineatus. Five biological replicates were sampled for every developmental stage of a species. ENA FIRST PUBLIC:2022 08 05|ENA LAST UPDATE:2022 08 08   Metamorphic tissue without xxx from Danio rerio Drerio metamorphic 3 SAMEA110464157 max planck institute for biology ENA FIRST PUBLIC:2022 08 08|ENA LAST UPDATE:2022 08 08|External Id:SAMEA110464157|INSDC center alias:MAX PLANCK INSTITUTE FOR BIOLOGY|INSDC center name:max planck institute for biology|INSDC first public:2022 08 08T04:26:46Z|INSDC last update:2022 08 08T04:26:46Z|INSDC status:public|Submitter Id:SAMPLE23|collected by:Marco Podobnik|collection date:2018 06 27|common name:zebrafish|dev stage:Metamorphic|identified by:Marco Podobnik|sample name:SAMPLE23|sex:not provided|tissue type:whole body without xxx                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 05 08 2022 14:25:08:835 19174 unspecified 1 Illumina TruSeq DNA Nano Kit   RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP140005 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2022 08 08|ENA LAST UPDATE:2022 08 08 S879Nr23.1.fastq.gz S879Nr23.2.fastq.gz fastq fastq 8270390422.0 41338131.0 ena RUN TAB 05 08 2022 14:25:08:835 19175 0:100.03 1:100.03 A:2156060704;C:1998612686;G:2055201244;T:2060404840;N:110948 100 100     2156060704 1998612686 2055201244 2060404840 110948 ERX9574474 ERS12562185 ERA16814395 max planck institute for biology|European Nucleotide Archive max planck institute for biology 2 0.97085 0.97083 0.04232 0.04236 0.7219 0.72671 0.47325 0.4807 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Germany 2022-08-05 Undetermined Undetermined Trunk Surface Structure
11151 11151 ERR10034069 ERX9574473 ERS12562184 ERP140005 PRJEB55122 Danio developmental transcriptomes ca4a518e-aaf7-42d9-9758-352aac808809 Other Transcriptomic analysis of four different developmental stages of four Danio species D. rerio D. aesculapii Danio aff. kyathit striped also known as Danio quagga and D. albolineatus. Five biological replicates were sampled for every developmental stage of a species. ENA FIRST PUBLIC:2022 08 05|ENA LAST UPDATE:2022 08 08   Metamorphic tissue without xxx from Danio rerio Drerio metamorphic 2 SAMEA110464156 max planck institute for biology ENA FIRST PUBLIC:2022 08 08|ENA LAST UPDATE:2022 08 08|External Id:SAMEA110464156|INSDC center alias:MAX PLANCK INSTITUTE FOR BIOLOGY|INSDC center name:max planck institute for biology|INSDC first public:2022 08 08T04:26:46Z|INSDC last update:2022 08 08T04:26:46Z|INSDC status:public|Submitter Id:SAMPLE22|collected by:Marco Podobnik|collection date:2018 06 27|common name:zebrafish|dev stage:Metamorphic|identified by:Marco Podobnik|sample name:SAMPLE22|sex:not provided|tissue type:whole body without xxx                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 05 08 2022 14:25:08:834 19172 unspecified 1 Illumina TruSeq DNA Nano Kit   RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP140005 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2022 08 08|ENA LAST UPDATE:2022 08 08 S879Nr22.1.fastq.gz S879Nr22.2.fastq.gz fastq fastq 10977356920.0 54380062.0 ena RUN TAB 05 08 2022 14:25:08:834 19173 0:100.93 1:100.93 A:2852856166;C:2671616791;G:2798184312;T:2654546853;N:152798 100 100     2852856166 2671616791 2798184312 2654546853 152798 ERX9574473 ERS12562184 ERA16814395 max planck institute for biology|European Nucleotide Archive max planck institute for biology 2 0.9765 0.97629 0.03531 0.03529 0.72025 0.72705 0.47808 0.46326 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Germany 2022-08-05 Undetermined Undetermined Trunk Surface Structure
11152 11152 ERR10034068 ERX9574472 ERS12562183 ERP140005 PRJEB55122 Danio developmental transcriptomes ca4a518e-aaf7-42d9-9758-352aac808809 Other Transcriptomic analysis of four different developmental stages of four Danio species D. rerio D. aesculapii Danio aff. kyathit striped also known as Danio quagga and D. albolineatus. Five biological replicates were sampled for every developmental stage of a species. ENA FIRST PUBLIC:2022 08 05|ENA LAST UPDATE:2022 08 08   Metamorphic tissue without xxx from Danio rerio Drerio metamorphic 1 SAMEA110464155 max planck institute for biology ENA FIRST PUBLIC:2022 08 08|ENA LAST UPDATE:2022 08 08|External Id:SAMEA110464155|INSDC center alias:MAX PLANCK INSTITUTE FOR BIOLOGY|INSDC center name:max planck institute for biology|INSDC first public:2022 08 08T04:26:46Z|INSDC last update:2022 08 08T04:26:46Z|INSDC status:public|Submitter Id:SAMPLE21|collected by:Marco Podobnik|collection date:2018 06 27|common name:zebrafish|dev stage:Metamorphic|identified by:Marco Podobnik|sample name:SAMPLE21|sex:not provided|tissue type:whole body without xxx                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 05 08 2022 14:25:08:834 19170 unspecified 1 Illumina TruSeq DNA Nano Kit   RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP140005 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2022 08 08|ENA LAST UPDATE:2022 08 08 S879Nr21.1.fastq.gz S879Nr21.2.fastq.gz fastq fastq 11346084502.0 56210802.0 ena RUN TAB 05 08 2022 14:25:08:834 19171 0:100.92 1:100.92 A:2950787998;C:2755514202;G:2902131288;T:2737495846;N:155168 100 100     2950787998 2755514202 2902131288 2737495846 155168 ERX9574472 ERS12562183 ERA16814395 max planck institute for biology|European Nucleotide Archive max planck institute for biology 2 0.9732 0.97208 0.02959 0.02983 0.72322 0.73135 0.47796 0.47326 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Germany 2022-08-05 Undetermined Undetermined Trunk Surface Structure
11153 11153 ERR10034052 ERX9574456 ERS12562167 ERP140005 PRJEB55122 Danio developmental transcriptomes ca4a518e-aaf7-42d9-9758-352aac808809 Other Transcriptomic analysis of four different developmental stages of four Danio species D. rerio D. aesculapii Danio aff. kyathit striped also known as Danio quagga and D. albolineatus. Five biological replicates were sampled for every developmental stage of a species. ENA FIRST PUBLIC:2022 08 05|ENA LAST UPDATE:2022 08 08   Larval tissue without xxx from Danio rerio Drerio larval 5 SAMEA110464139 max planck institute for biology ENA FIRST PUBLIC:2022 08 08|ENA LAST UPDATE:2022 08 08|External Id:SAMEA110464139|INSDC center alias:MAX PLANCK INSTITUTE FOR BIOLOGY|INSDC center name:max planck institute for biology|INSDC first public:2022 08 08T04:26:46Z|INSDC last update:2022 08 08T04:26:46Z|INSDC status:public|Submitter Id:SAMPLE5|collected by:Marco Podobnik|collection date:2018 06 19|common name:zebrafish|dev stage:Larval|identified by:Marco Podobnik|sample name:SAMPLE5|sex:not provided|tissue type:whole body without xxx                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 05 08 2022 14:25:08:829 19138 unspecified 1 Illumina TruSeq DNA Nano Kit   RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP140005 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2022 08 08|ENA LAST UPDATE:2022 08 08 S879Nr5.1.fastq.gz S879Nr5.2.fastq.gz fastq fastq 7308445864.0 36509997.0 ena RUN TAB 05 08 2022 14:25:08:829 19139 0:100.09 1:100.09 A:1934019972;C:1742739870;G:1803466955;T:1828120200;N:98867 100 100     1934019972 1742739870 1803466955 1828120200 98867 ERX9574456 ERS12562167 ERA16814395 max planck institute for biology|European Nucleotide Archive max planck institute for biology 2 0.96596 0.96653 0.05312 0.05284 0.71323 0.71873 0.49632 0.48138 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Germany 2022-08-05 Larval Larval Trunk Surface Structure
11154 11154 ERR10034051 ERX9574455 ERS12562166 ERP140005 PRJEB55122 Danio developmental transcriptomes ca4a518e-aaf7-42d9-9758-352aac808809 Other Transcriptomic analysis of four different developmental stages of four Danio species D. rerio D. aesculapii Danio aff. kyathit striped also known as Danio quagga and D. albolineatus. Five biological replicates were sampled for every developmental stage of a species. ENA FIRST PUBLIC:2022 08 05|ENA LAST UPDATE:2022 08 08   Larval tissue without xxx from Danio rerio Drerio larval 4 SAMEA110464138 max planck institute for biology ENA FIRST PUBLIC:2022 08 08|ENA LAST UPDATE:2022 08 08|External Id:SAMEA110464138|INSDC center alias:MAX PLANCK INSTITUTE FOR BIOLOGY|INSDC center name:max planck institute for biology|INSDC first public:2022 08 08T04:26:46Z|INSDC last update:2022 08 08T04:26:46Z|INSDC status:public|Submitter Id:SAMPLE4|collected by:Marco Podobnik|collection date:2018 06 19|common name:zebrafish|dev stage:Larval|identified by:Marco Podobnik|sample name:SAMPLE4|sex:not provided|tissue type:whole body without xxx                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 05 08 2022 14:25:08:822 19136 unspecified 1 Illumina TruSeq DNA Nano Kit   RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP140005 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2022 08 08|ENA LAST UPDATE:2022 08 08 S879Nr4.1.fastq.gz S879Nr4.2.fastq.gz fastq fastq 8046902370.0 40206331.0 ena RUN TAB 05 08 2022 14:25:08:829 19137 0:100.07 1:100.07 A:2154247315;C:1901540683;G:1965167700;T:2025838764;N:107908 100 100     2154247315 1901540683 1965167700 2025838764 107908 ERX9574455 ERS12562166 ERA16814395 max planck institute for biology|European Nucleotide Archive max planck institute for biology 2 0.96507 0.96543 0.05345 0.0533 0.71553 0.72123 0.48553 0.49 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Germany 2022-08-05 Larval Larval Trunk Surface Structure
11155 11155 ERR10034050 ERX9574454 ERS12562165 ERP140005 PRJEB55122 Danio developmental transcriptomes ca4a518e-aaf7-42d9-9758-352aac808809 Other Transcriptomic analysis of four different developmental stages of four Danio species D. rerio D. aesculapii Danio aff. kyathit striped also known as Danio quagga and D. albolineatus. Five biological replicates were sampled for every developmental stage of a species. ENA FIRST PUBLIC:2022 08 05|ENA LAST UPDATE:2022 08 08   Larval tissue without xxx from Danio rerio Drerio larval 3 SAMEA110464137 max planck institute for biology ENA FIRST PUBLIC:2022 08 08|ENA LAST UPDATE:2022 08 08|External Id:SAMEA110464137|INSDC center alias:MAX PLANCK INSTITUTE FOR BIOLOGY|INSDC center name:max planck institute for biology|INSDC first public:2022 08 08T04:26:46Z|INSDC last update:2022 08 08T04:26:46Z|INSDC status:public|Submitter Id:SAMPLE3|collected by:Marco Podobnik|collection date:2018 06 19|common name:zebrafish|dev stage:Larval|identified by:Marco Podobnik|sample name:SAMPLE3|sex:not provided|tissue type:whole body without xxx                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 05 08 2022 14:25:08:821 19134 unspecified 1 Illumina TruSeq DNA Nano Kit   RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP140005 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2022 08 08|ENA LAST UPDATE:2022 08 08 S879Nr3.1.fastq.gz S879Nr3.2.fastq.gz fastq fastq 10897526786.0 54442757.0 ena RUN TAB 05 08 2022 14:25:08:821 19135 0:100.08 1:100.08 A:2902340346;C:2590905706;G:2655361716;T:2748771201;N:147817 100 100     2902340346 2590905706 2655361716 2748771201 147817 ERX9574454 ERS12562165 ERA16814395 max planck institute for biology|European Nucleotide Archive max planck institute for biology 2 0.93244 0.93322 0.04311 0.04269 0.72452 0.72723 0.49726 0.4784 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Germany 2022-08-05 Larval Larval Trunk Surface Structure
11156 11156 ERR10034049 ERX9574453 ERS12562164 ERP140005 PRJEB55122 Danio developmental transcriptomes ca4a518e-aaf7-42d9-9758-352aac808809 Other Transcriptomic analysis of four different developmental stages of four Danio species D. rerio D. aesculapii Danio aff. kyathit striped also known as Danio quagga and D. albolineatus. Five biological replicates were sampled for every developmental stage of a species. ENA FIRST PUBLIC:2022 08 05|ENA LAST UPDATE:2022 08 08   Larval tissue without xxx from Danio rerio Drerio larval 2 SAMEA110464136 max planck institute for biology ENA FIRST PUBLIC:2022 08 08|ENA LAST UPDATE:2022 08 08|External Id:SAMEA110464136|INSDC center alias:MAX PLANCK INSTITUTE FOR BIOLOGY|INSDC center name:max planck institute for biology|INSDC first public:2022 08 08T04:26:46Z|INSDC last update:2022 08 08T04:26:46Z|INSDC status:public|Submitter Id:SAMPLE2|collected by:Marco Podobnik|collection date:2018 06 19|common name:zebrafish|dev stage:Larval|identified by:Marco Podobnik|sample name:SAMPLE2|sex:not provided|tissue type:whole body without xxx                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 05 08 2022 14:25:08:821 19132 unspecified 1 Illumina TruSeq DNA Nano Kit   RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP140005 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2022 08 08|ENA LAST UPDATE:2022 08 08 S879Nr2.1.fastq.gz S879Nr2.2.fastq.gz fastq fastq 8516273680.0 42589650.0 ena RUN TAB 05 08 2022 14:25:08:821 19133 0:99.98 1:99.98 A:2232300748;C:2055212367;G:2121115843;T:2107529926;N:114796 99 99     2232300748 2055212367 2121115843 2107529926 114796 ERX9574453 ERS12562164 ERA16814395 max planck institute for biology|European Nucleotide Archive max planck institute for biology 2 0.97117 0.97187 0.05876 0.05804 0.72115 0.72689 0.51447 0.50827 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Germany 2022-08-05 Larval Larval Trunk Surface Structure
11157 11157 ERR10034048 ERX9574452 ERS12562163 ERP140005 PRJEB55122 Danio developmental transcriptomes ca4a518e-aaf7-42d9-9758-352aac808809 Other Transcriptomic analysis of four different developmental stages of four Danio species D. rerio D. aesculapii Danio aff. kyathit striped also known as Danio quagga and D. albolineatus. Five biological replicates were sampled for every developmental stage of a species. ENA FIRST PUBLIC:2022 08 05|ENA LAST UPDATE:2022 08 08   Larval tissue without xxx from Danio rerio Drerio larval 1 SAMEA110464135 max planck institute for biology ENA FIRST PUBLIC:2022 08 08|ENA LAST UPDATE:2022 08 08|External Id:SAMEA110464135|INSDC center alias:MAX PLANCK INSTITUTE FOR BIOLOGY|INSDC center name:max planck institute for biology|INSDC first public:2022 08 08T04:26:46Z|INSDC last update:2022 08 08T04:26:46Z|INSDC status:public|Submitter Id:SAMPLE1|collected by:Marco Podobnik|collection date:2018 06 19|common name:zebrafish|dev stage:Larval|identified by:Marco Podobnik|sample name:SAMPLE1|sex:not provided|tissue type:whole body without xxx                 Illumina NovaSeq 6000 paired end sequencing ena EXPERIMENT TAB 05 08 2022 14:25:08:820 19130 unspecified 1 Illumina TruSeq DNA Nano Kit   RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   ERP140005 Illumina NovaSeq 6000 paired end sequencing ENA FIRST PUBLIC:2022 08 08|ENA LAST UPDATE:2022 08 08 S879Nr1.1.fastq.gz S879Nr1.2.fastq.gz fastq fastq 5477863098.0 27332001.0 ena RUN TAB 05 08 2022 14:25:08:821 19131 0:100.21 1:100.21 A:1436230762;C:1320194529;G:1370010454;T:1351352868;N:74485 100 100     1436230762 1320194529 1370010454 1351352868 74485 ERX9574452 ERS12562163 ERA16814395 max planck institute for biology|European Nucleotide Archive max planck institute for biology 2 0.97196 0.97163 0.05932 0.05814 0.72723 0.73348 0.50582 0.51053 101 101 B B biological fallback assumption illumina novaseq_era unknown poly_a trueseq bulk unknown unknown   Germany 2022-08-05 Larval Larval Trunk Surface Structure
24906 24906 SRR25532497 SRX21261798 SRS18515093 SRP453533 PRJNA1002570 MBT induced effects in zebrafish eyes PRJNA1002570 Other We intended to screen the key events in zebrafish larvae post MBT exposure.         control1   strain:not collected|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:not collected|dev stage:not collected|collection date:2022 11|geo loc name:China: Beijing|sex:not applicable|tissue:whole body|lat lon:39.9 N 116.42 E|sample type:whole organism|BioSampleModel:Model organism or animal                 RNAseq of fish S10 S10 normal RNAseq of fish     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   SRP453533     CK1_1.fq.gz CK1_2.fq.gz fastq fastq 6650697900.0 22168993.0 CK1 1.fq.gz 0:150 1:150 A:1918460669;C:1420936092;G:1412569553;T:1898656995;N:74591 150 150     1918460669 1420936092 1412569553 1898656995 74591 SRX21261798 SRS18515093 SRA1687160 Chinese Academy of Sciences|RESEARCH CENTER FOR ECO-ENVIRONMENTAL SCIENCES Chinese Academy of Sciences 2 0.91765 0.91694 0.15569 0.15461 0.70185 0.7027 0.47761 0.47369 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2023-08-05 Undetermined Larval Trunk Surface Structure
24907 24907 SRR25532498 SRX21261797 SRS18515092 SRP453533 PRJNA1002570 MBT induced effects in zebrafish eyes PRJNA1002570 Other We intended to screen the key events in zebrafish larvae post MBT exposure.         MBTH3   strain:not collected|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:not collected|dev stage:not collected|collection date:2022 11|geo loc name:China: Beijing|sex:not applicable|tissue:whole body|lat lon:39.9 N 116.41 E|sample type:whole organism|BioSampleModel:Model organism or animal                 RNAseq of fish S9 S9 normal RNAseq of fish     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   SRP453533     MBTH3_2.fq.gz MBTH3_1.fq.gz fastq fastq 6333332100.0 21111107.0 MBTH3 1.fq.gz 0:150 1:150 A:1755718187;C:1429192980;G:1420776066;T:1727550080;N:94787 150 150     1755718187 1429192980 1420776066 1727550080 94787 SRX21261797 SRS18515092 SRA1687160 Chinese Academy of Sciences|RESEARCH CENTER FOR ECO-ENVIRONMENTAL SCIENCES Chinese Academy of Sciences 2 0.93518 0.93355 0.11668 0.11602 0.67799 0.67817 0.47705 0.47875 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2023-08-05 Undetermined Larval Trunk Surface Structure
24908 24908 SRR25532499 SRX21261796 SRS18515091 SRP453533 PRJNA1002570 MBT induced effects in zebrafish eyes PRJNA1002570 Other We intended to screen the key events in zebrafish larvae post MBT exposure.         MBTH2   strain:not collected|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:not collected|dev stage:not collected|collection date:2022 11|geo loc name:China: Beijing|sex:not applicable|tissue:whole body|lat lon:39.9 N 116.40 E|sample type:whole organism|BioSampleModel:Model organism or animal                 RNAseq of fish S8 S8 normal RNAseq of fish     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   SRP453533     MBTH2_1.fq.gz MBTH2_2.fq.gz fastq fastq 6373733400.0 21245778.0 MBTH2 1.fq.gz 0:150 1:150 A:1775132718;C:1430955007;G:1424605018;T:1742942742;N:97915 150 150     1775132718 1430955007 1424605018 1742942742 97915 SRX21261796 SRS18515091 SRA1687160 Chinese Academy of Sciences|RESEARCH CENTER FOR ECO-ENVIRONMENTAL SCIENCES Chinese Academy of Sciences 2 0.93081 0.93016 0.12061 0.11947 0.68215 0.68172 0.47956 0.48186 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2023-08-05 Undetermined Larval Trunk Surface Structure
24909 24909 SRR25532500 SRX21261795 SRS18515090 SRP453533 PRJNA1002570 MBT induced effects in zebrafish eyes PRJNA1002570 Other We intended to screen the key events in zebrafish larvae post MBT exposure.         MBTH1   strain:not collected|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:not collected|dev stage:not collected|collection date:2022 11|geo loc name:China: Beijing|sex:not applicable|tissue:whole body|lat lon:39.9 N 116.39 E|sample type:whole organism|BioSampleModel:Model organism or animal                 RNAseq of fish S7 S7 normal RNAseq of fish     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   SRP453533     MBTH1_1.fq.gz MBTH1_2.fq.gz fastq fastq 6224052600.0 20746842.0 MBTH1 1.fq.gz 0:150 1:150 A:1753175301;C:1379045823;G:1371537072;T:1720226102;N:68302 150 150     1753175301 1379045823 1371537072 1720226102 68302 SRX21261795 SRS18515090 SRA1687160 Chinese Academy of Sciences|RESEARCH CENTER FOR ECO-ENVIRONMENTAL SCIENCES Chinese Academy of Sciences 2 0.9276 0.92379 0.13642 0.13482 0.68416 0.68479 0.47638 0.47581 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2023-08-05 Undetermined Larval Trunk Surface Structure
24910 24910 SRR25532501 SRX21261794 SRS18515089 SRP453533 PRJNA1002570 MBT induced effects in zebrafish eyes PRJNA1002570 Other We intended to screen the key events in zebrafish larvae post MBT exposure.         MBTM3   strain:not collected|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:not collected|dev stage:not collected|collection date:2022 11|geo loc name:China: Beijing|sex:not applicable|tissue:whole body|lat lon:39.9 N 116.38 E|sample type:whole organism|BioSampleModel:Model organism or animal                 RNAseq of fish S6 S6 normal RNAseq of fish     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   SRP453533     MBTM3_2.fq.gz MBTM3_1.fq.gz fastq fastq 6885667800.0 22952226.0 MBTM3 1.fq.gz 0:150 1:150 A:1936367424;C:1526831248;G:1520656271;T:1901736749;N:76108 150 150     1936367424 1526831248 1520656271 1901736749 76108 SRX21261794 SRS18515089 SRA1687160 Chinese Academy of Sciences|RESEARCH CENTER FOR ECO-ENVIRONMENTAL SCIENCES Chinese Academy of Sciences 2 0.92736 0.92516 0.12801 0.12693 0.68982 0.69063 0.47163 0.4612 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2023-08-05 Undetermined Larval Trunk Surface Structure
24911 24911 SRR25532502 SRX21261793 SRS18515088 SRP453533 PRJNA1002570 MBT induced effects in zebrafish eyes PRJNA1002570 Other We intended to screen the key events in zebrafish larvae post MBT exposure.         MBTM2   strain:not collected|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:not collected|dev stage:not collected|collection date:2022 11|geo loc name:China: Beijing|sex:not applicable|tissue:whole body|lat lon:39.9 N 116.37 E|sample type:whole organism|BioSampleModel:Model organism or animal                 RNAseq of fish S5 S5 normal RNAseq of fish     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   SRP453533     MBTM2_1.fq.gz MBTM2_2.fq.gz fastq fastq 6529427400.0 21764758.0 MBTM2 1.fq.gz 0:150 1:150 A:1808908277;C:1472638598;G:1467975655;T:1779801002;N:103868 150 150     1808908277 1472638598 1467975655 1779801002 103868 SRX21261793 SRS18515088 SRA1687160 Chinese Academy of Sciences|RESEARCH CENTER FOR ECO-ENVIRONMENTAL SCIENCES Chinese Academy of Sciences 2 0.9296 0.93217 0.11772 0.11735 0.68262 0.68331 0.4724 0.4721 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2023-08-05 Undetermined Larval Trunk Surface Structure
24912 24912 SRR25532503 SRX21261792 SRS18515087 SRP453533 PRJNA1002570 MBT induced effects in zebrafish eyes PRJNA1002570 Other We intended to screen the key events in zebrafish larvae post MBT exposure.         MBTM1   strain:not collected|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:not collected|dev stage:not collected|collection date:2022 11|geo loc name:China: Beijing|sex:not applicable|tissue:whole body|lat lon:39.9 N 116.36 E|sample type:whole organism|BioSampleModel:Model organism or animal                 RNAseq of fish S4 S4 normal RNAseq of fish     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   SRP453533     MBTM1_2.fq.gz MBTM1_1.fq.gz fastq fastq 6733924800.0 22446416.0 MBTM1 1.fq.gz 0:150 1:150 A:1847490053;C:1535661831;G:1528806965;T:1821868439;N:97512 150 150     1847490053 1535661831 1528806965 1821868439 97512 SRX21261792 SRS18515087 SRA1687160 Chinese Academy of Sciences|RESEARCH CENTER FOR ECO-ENVIRONMENTAL SCIENCES Chinese Academy of Sciences 2 0.93177 0.93448 0.11165 0.11192 0.67722 0.67823 0.47325 0.46912 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2023-08-05 Undetermined Larval Trunk Surface Structure
24913 24913 SRR25532504 SRX21261791 SRS18515086 SRP453533 PRJNA1002570 MBT induced effects in zebrafish eyes PRJNA1002570 Other We intended to screen the key events in zebrafish larvae post MBT exposure.         MBTL3   strain:not collected|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:not collected|dev stage:not collected|collection date:2022 11|geo loc name:China: Beijing|sex:not applicable|tissue:whole body|lat lon:39.9 N 116.35 E|sample type:whole organism|BioSampleModel:Model organism or animal                 RNAseq of fish S3 S3 normal RNAseq of fish     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   SRP453533     MBTL3_1.fq.gz MBTL3_2.fq.gz fastq fastq 9066238500.0 30220795.0 MBTL3 1.fq.gz 0:150 1:150 A:2629692873;C:1932648084;G:1927694770;T:2576111685;N:91088 150 150     2629692873 1932648084 1927694770 2576111685 91088 SRX21261791 SRS18515086 SRA1687160 Chinese Academy of Sciences|RESEARCH CENTER FOR ECO-ENVIRONMENTAL SCIENCES Chinese Academy of Sciences 2 0.93079 0.91809 0.1476 0.14446 0.69201 0.69258 0.47663 0.47687 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2023-08-05 Undetermined Larval Trunk Surface Structure
24914 24914 SRR25532505 SRX21261790 SRS18515085 SRP453533 PRJNA1002570 MBT induced effects in zebrafish eyes PRJNA1002570 Other We intended to screen the key events in zebrafish larvae post MBT exposure.         control3   strain:not collected|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:not collected|dev stage:not collected|collection date:2022 11|geo loc name:China: Beijing|sex:not applicable|tissue:whole body|lat lon:39.9 N 116.44 E|sample type:whole organism|BioSampleModel:Model organism or animal                 RNAseq of fish S12 S12 normal RNAseq of fish     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   SRP453533     CK3_1.fq.gz CK3_2.fq.gz fastq fastq 6596041200.0 21986804.0 CK3 1.fq.gz 0:150 1:150 A:1886076947;C:1431757712;G:1423068767;T:1855067482;N:70292 150 150     1886076947 1431757712 1423068767 1855067482 70292 SRX21261790 SRS18515085 SRA1687160 Chinese Academy of Sciences|RESEARCH CENTER FOR ECO-ENVIRONMENTAL SCIENCES Chinese Academy of Sciences 2 0.92168 0.92147 0.14797 0.14768 0.68962 0.68935 0.47874 0.48307 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2023-08-05 Undetermined Larval Trunk Surface Structure
24915 24915 SRR25532506 SRX21261789 SRS18515084 SRP453533 PRJNA1002570 MBT induced effects in zebrafish eyes PRJNA1002570 Other We intended to screen the key events in zebrafish larvae post MBT exposure.         control2   strain:not collected|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:not collected|dev stage:not collected|collection date:2022 11|geo loc name:China: Beijing|sex:not applicable|tissue:whole body|lat lon:39.9 N 116.43 E|sample type:whole organism|BioSampleModel:Model organism or animal                 RNAseq of fish S11 S11 normal RNAseq of fish     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   SRP453533     CK2_1.fq.gz CK2_2.fq.gz fastq fastq 6749651400.0 22498838.0 CK2 1.fq.gz 0:150 1:150 A:1934306700;C:1451979582;G:1445551014;T:1917740723;N:73381 150 150     1934306700 1451979582 1445551014 1917740723 73381 SRX21261789 SRS18515084 SRA1687160 Chinese Academy of Sciences|RESEARCH CENTER FOR ECO-ENVIRONMENTAL SCIENCES Chinese Academy of Sciences 2 0.92261 0.92062 0.15096 0.14969 0.69783 0.69702 0.48303 0.49016 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2023-08-05 Undetermined Larval Trunk Surface Structure
24916 24916 SRR25532507 SRX21261788 SRS18515083 SRP453533 PRJNA1002570 MBT induced effects in zebrafish eyes PRJNA1002570 Other We intended to screen the key events in zebrafish larvae post MBT exposure.         MBTL2   strain:not collected|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:not collected|dev stage:not collected|collection date:2022 11|geo loc name:China: Beijing|sex:not applicable|tissue:whole body|lat lon:39.9 N 116.34 E|sample type:whole organism|BioSampleModel:Model organism or animal                 RNAseq of fish S2 S2 normal RNAseq of fish     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   SRP453533     MBTL2_1.fq.gz MBTL2_2.fq.gz fastq fastq 6868354800.0 22894516.0 MBTL2 1.fq.gz 0:150 1:150 A:1956017484;C:1493585329;G:1486220640;T:1932456728;N:74619 150 150     1956017484 1493585329 1486220640 1932456728 74619 SRX21261788 SRS18515083 SRA1687160 Chinese Academy of Sciences|RESEARCH CENTER FOR ECO-ENVIRONMENTAL SCIENCES Chinese Academy of Sciences 2 0.92126 0.91908 0.14701 0.14525 0.69394 0.69363 0.47281 0.47636 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2023-08-05 Undetermined Larval Trunk Surface Structure
24917 24917 SRR25532508 SRX21261787 SRS18515082 SRP453533 PRJNA1002570 MBT induced effects in zebrafish eyes PRJNA1002570 Other We intended to screen the key events in zebrafish larvae post MBT exposure.         MBTL1   strain:not collected|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:not collected|dev stage:not collected|collection date:2022 11|geo loc name:China: Beijing|sex:not applicable|tissue:whole body|lat lon:39.9 N 116.33 E|sample type:whole organism|BioSampleModel:Model organism or animal                 RNAseq of fish S1 S1 normal RNAseq of fish     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   SRP453533     MBTL1_1.fq.gz MBTL1_2.fq.gz fastq fastq 6305127900.0 21017093.0 MBTL1 1.fq.gz 0:150 1:150 A:1797030982;C:1364002775;G:1357954929;T:1786051425;N:87789 150 150     1797030982 1364002775 1357954929 1786051425 87789 SRX21261787 SRS18515082 SRA1687160 Chinese Academy of Sciences|RESEARCH CENTER FOR ECO-ENVIRONMENTAL SCIENCES Chinese Academy of Sciences 2 0.92195 0.92138 0.14404 0.1433 0.69656 0.69623 0.47185 0.46936 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2023-08-05 Undetermined Larval Trunk Surface Structure
50907 50907 SRR8377207 SRX5187250 SRS4193652 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     WT3 21d   strain:AB|age:21 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 3 wild type 21 dpf organism or animal                 Danio rerio amh mutant RNA seq WT3 21d WT3 21d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following Amores 2011. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     WT3_21d_R2.fq.gz WT3_21d_R1.fq.gz fastq fastq 587656784.0 2909192.0 WT3 21d R1.fq.gz 0:101 1:101 A:147120638;C:141086680;G:143930359;T:154050320;N:1468787 101 101     147120638 141086680 143930359 154050320 1468787 SRX5187250 SRS4193652 SRA827573 University of Oregon|Biology University of Oregon 2 0.80926 0.85225 0.08368 0.05947 0.75485 0.75757 0.42523 0.58639 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-09-06 Larval Larval Trunk Surface Structure
50908 50908 SRR8377208 SRX5187249 SRS4193651 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     WT2 35d   strain:AB|age:35 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 2 wild type 35 dpf organism or animal                 Danio rerio amh mutant RNA seq WT2 35d WT2 35d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following Amores 2011. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     WT2_35d_R1.fq.gz WT2_35d_R2.fq.gz fastq fastq 571893714.0 2831157.0 WT2 35d R1.fq.gz 0:101 1:101 A:145166622;C:135811176;G:137506724;T:151978871;N:1430321 101 101     145166622 135811176 137506724 151978871 1430321 SRX5187249 SRS4193651 SRA827573 University of Oregon|Biology University of Oregon 2 0.78867 0.8064 0.09492 0.07075 0.7558 0.7626 0.49842 0.62539 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-09-06 Juvenile Juvenile Trunk Surface Structure
50909 50909 SRR8377209 SRX5187248 SRS4193650 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     WT2 21d   strain:AB|age:21 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 2 wild type 21 dpf organism or animal                 Danio rerio amh mutant RNA seq WT2 21d WT2 21d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following Amores 2011. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     WT2_21d_R1.fq.gz WT2_21d_R2.fq.gz fastq fastq 848802384.0 4201992.0 WT2 21d R1.fq.gz 0:101 1:101 A:210959204;C:204406512;G:209363494;T:221949337;N:2123837 101 101     210959204 204406512 209363494 221949337 2123837 SRX5187248 SRS4193650 SRA827573 University of Oregon|Biology University of Oregon 2 0.81423 0.85754 0.08287 0.05582 0.75889 0.7623 0.42817 0.57447 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-09-06 Larval Larval Trunk Surface Structure
50910 50910 SRR8377210 SRX5187247 SRS4193649 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     WT1 35d   strain:AB|age:35 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 1 wild type 35 dpf organism or animal                 Danio rerio amh mutant RNA seq WT1 35d WT1 35d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following Amores 2011. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     WT1_35d_R1.fq.gz WT1_35d_R2.fq.gz fastq fastq 1155741586.0 5721493.0 WT1 35d R1.fq.gz 0:101 1:101 A:292356993;C:274928333;G:278712623;T:306842252;N:2901385 101 101     292356993 274928333 278712623 306842252 2901385 SRX5187247 SRS4193649 SRA827573 University of Oregon|Biology University of Oregon 2 0.76241 0.80051 0.10558 0.07532 0.75211 0.75266 0.4642 0.64552 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-09-06 Juvenile Juvenile Trunk Surface Structure
50915 50915 SRR8377215 SRX5187242 SRS4193644 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     WT4 21d   strain:AB|age:21 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 4 wild type 21 dpf organism or animal                 Danio rerio amh mutant RNA seq WT4 21d WT4 21d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following Amores 2011. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     WT4_21d_R1.fq.gz WT4_21d_R2.fq.gz fastq fastq 3712802016.0 18380208.0 WT4 21d R1.fq.gz 0:101 1:101 A:933429939;C:885854814;G:905931198;T:978273413;N:9312652 101 101     933429939 885854814 905931198 978273413 9312652 SRX5187242 SRS4193644 SRA827573 University of Oregon|Biology University of Oregon 2 0.79693 0.83824 0.07527 0.05853 0.73957 0.74164 0.44482 0.59365 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-09-06 Larval Larval Trunk Surface Structure
50916 50916 SRR8377216 SRX5187241 SRS4193643 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     WT3 35d   strain:AB|age:35 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 3 wild type 35 dpf organism or animal                 Danio rerio amh mutant RNA seq WT3 35d WT3 35d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following Amores 2011. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     WT3_35d_R1.fq.gz WT3_35d_R2.fq.gz fastq fastq 2213899396.0 10959898.0 WT3 35d R1.fq.gz 0:101 1:101 A:554041965;C:532710862;G:540276530;T:581316693;N:5553346 101 101     554041965 532710862 540276530 581316693 5553346 SRX5187241 SRS4193643 SRA827573 University of Oregon|Biology University of Oregon 2 0.79591 0.83174 0.09578 0.06681 0.7302 0.73026 0.44297 0.62741 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-09-06 Juvenile Juvenile Trunk Surface Structure
50917 50917 SRR8377217 SRX5187240 SRS4193642 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     Mut4 21d   strain:AB|age:21 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 4 mutant 21 dpf organism or animal                 Danio rerio amh mutant RNA seq Mut4 21d Mut4 21d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following {Amores 2011 #69}. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     Mut4_21d_R2.fq.gz Mut4_21d_R1.fq.gz fastq fastq 2074916730.0 10271865.0 Mut4 21d R1.fq.gz 0:101 1:101 A:504409205;C:511125708;G:525381023;T:528812063;N:5188731 101 101     504409205 511125708 525381023 528812063 5188731 SRX5187240 SRS4193642 SRA827573 University of Oregon|Biology University of Oregon 2 0.80717 0.85419 0.07197 0.04529 0.7713 0.77222 0.40469 0.57073 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-09-06 Larval Larval Trunk Surface Structure
50918 50918 SRR8377218 SRX5187239 SRS4193641 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     Mut4 35d   strain:AB|age:35 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 4 mutant 35 dpf organism or animal                 Danio rerio amh mutant RNA seq Mut4 35d Mut4 35d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following {Amores 2011 #69}. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     Mut4_35d_R2.fq.gz Mut4_35d_R1.fq.gz fastq fastq 513244832.0 2540816.0 Mut4 35d R1.fq.gz 0:101 1:101 A:129206304;C:122668650;G:124118336;T:135960922;N:1290620 101 101     129206304 122668650 124118336 135960922 1290620 SRX5187239 SRS4193641 SRA827573 University of Oregon|Biology University of Oregon 2 0.75977 0.79881 0.08292 0.05843 0.73821 0.73841 0.46109 0.63029 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-09-06 Juvenile Juvenile Trunk Surface Structure
50919 50919 SRR8377219 SRX5187238 SRS4193640 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     Mut3 21d   strain:AB|age:21 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 3 mutant 21 dpf organism or animal                 Danio rerio amh mutant RNA seq Mut3 21d Mut3 21d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following {Amores 2011 #69}. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     Mut3_21d_R2.fq.gz Mut3_21d_R1.fq.gz fastq fastq 2254342826.0 11160113.0 Mut3 21d R1.fq.gz 0:101 1:101 A:566605294;C:540302756;G:549581106;T:592199314;N:5654356 101 101     566605294 540302756 549581106 592199314 5654356 SRX5187238 SRS4193640 SRA827573 University of Oregon|Biology University of Oregon 2 0.80094 0.84348 0.09179 0.06509 0.74984 0.7515 0.42995 0.58997 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2018-12-28 Larval Larval Trunk Surface Structure
50920 50920 SRR8377220 SRX5187237 SRS4193639 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     Mut3 35d   strain:AB|age:35 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 3 mutant 35 dpf organism or animal                 Danio rerio amh mutant RNA seq Mut3 35d Mut3 35d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following {Amores 2011 #69}. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     Mut3_35d_R2.fq.gz Mut3_35d_R1.fq.gz fastq fastq 538713800.0 2666900.0 Mut3 35d R1.fq.gz 0:101 1:101 A:137960428;C:126697441;G:128931488;T:143775732;N:1348711 101 101     137960428 126697441 128931488 143775732 1348711 SRX5187237 SRS4193639 SRA827573 University of Oregon|Biology University of Oregon 2 0.74719 0.78839 0.09758 0.07078 0.74243 0.74552 0.41904 0.61805 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2018-12-28 Juvenile Juvenile Trunk Surface Structure
50921 50921 SRR8377221 SRX5187236 SRS4193638 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     Mut2 21d   strain:AB|age:21 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 2 mutant 21 dpf organism or animal                 Danio rerio amh mutant RNA seq Mut2 21d Mut2 21d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following {Amores 2011 #69}. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     Mut2_21d_R1.fq.gz Mut2_21d_R2.fq.gz fastq fastq 708251794.0 3506197.0 Mut2 21d R1.fq.gz 0:101 1:101 A:179039316;C:166989350;G:171231161;T:189221915;N:1770052 101 101     179039316 166989350 171231161 189221915 1770052 SRX5187236 SRS4193638 SRA827573 University of Oregon|Biology University of Oregon 2 0.78832 0.83214 0.07804 0.05769 0.75799 0.7595 0.46616 0.59051 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-09-06 Larval Larval Trunk Surface Structure
50922 50922 SRR8377222 SRX5187235 SRS4193637 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     Mut2 35d   strain:AB|age:35 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 2 mutant 35 dpf organism or animal                 Danio rerio amh mutant RNA seq Mut2 35d Mut2 35d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following {Amores 2011 #69}. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     Mut2_35d_R1.fq.gz Mut2_35d_R2.fq.gz fastq fastq 477929374.0 2365987.0 Mut2 35d R1.fq.gz 0:101 1:101 A:120800666;C:113959321;G:115434316;T:126536893;N:1198178 101 101     120800666 113959321 115434316 126536893 1198178 SRX5187235 SRS4193637 SRA827573 University of Oregon|Biology University of Oregon 2 0.78113 0.82359 0.11386 0.07902 0.76357 0.764 0.45261 0.57374 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-09-06 Juvenile Juvenile Trunk Surface Structure
50923 50923 SRR8377223 SRX5187234 SRS4193636 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     Mut1 21d   strain:AB|age:21 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|birth date:Zebrafish Facility at the University of Oregon|birth location:Zebrafish Facility at the University of Oregon|breeding history:Zebrafish Facility at the University of Oregon|breeding method:Zebrafish Facility at the University of Oregon|cell line:Zebrafish Facility at the University of Oregon|cell subtype:Zebrafish Facility at the University of Oregon|cell type:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 1 mutant 21 dpf organism or animal                 Danio rerio amh mutant RNA seq Mut1 21d Mut1 21d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following {Amores 2011 #69}. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     Mut1_21d_R2.fq.gz Mut1_21d_R1.fq.gz fastq fastq 1115232910.0 5520955.0 Mut1 21d R1.fq.gz 0:101 1:101 A:280578424;C:264405723;G:270961347;T:296477869;N:2809547 101 101     280578424 264405723 270961347 296477869 2809547 SRX5187234 SRS4193636 SRA827573 University of Oregon|Biology University of Oregon 2 0.78358 0.8284 0.07854 0.05768 0.75708 0.75493 0.45076 0.61376 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2018-12-28 Larval Larval Trunk Surface Structure
50924 50924 SRR8377224 SRX5187233 SRS4193635 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     Mut1 35d   strain:AB|age:35 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 1 mutant 35 dpf organism or animal                 Danio rerio amh mutant RNA seq Mut1 35d Mut1 35d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following {Amores 2011 #69}. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     Mut1_35d_R1.fq.gz Mut1_35d_R2.fq.gz fastq fastq 763890068.0 3781634.0 Mut1 35d R1.fq.gz 0:101 1:101 A:193272679;C:181852990;G:185455955;T:201399437;N:1909007 101 101     193272679 181852990 185455955 201399437 1909007 SRX5187233 SRS4193635 SRA827573 University of Oregon|Biology University of Oregon 2 0.76966 0.81108 0.1208 0.08422 0.76558 0.76674 0.42645 0.59374 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-09-06 Juvenile Juvenile Trunk Surface Structure
50925 50925 SRR8377225 SRX5187232 SRS4193634 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     Mut5 21d   strain:AB|age:21 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 5 mutant 21 dpf organism or animal                 Danio rerio amh mutant RNA seq Mut5 21d Mut5 21d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following {Amores 2011 #69}. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     Mut5_21d_R1.fq.gz Mut5_21d_R2.fq.gz fastq fastq 870831696.0 4311048.0 Mut5 21d R1.fq.gz 0:101 1:101 A:219134081;C:208061540;G:212208204;T:229247534;N:2180337 101 101     219134081 208061540 212208204 229247534 2180337 SRX5187232 SRS4193634 SRA827573 University of Oregon|Biology University of Oregon 2 0.80249 0.84439 0.0697 0.05159 0.74188 0.74657 0.42727 0.56696 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-09-06 Larval Larval Trunk Surface Structure
50926 50926 SRR8377226 SRX5187231 SRS4193633 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     Mut5 35d   strain:AB|age:35 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 5 mutant 35 dpf organism or animal                 Danio rerio amh mutant RNA seq Mut5 35d Mut5 35d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following {Amores 2011 #69}. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     Mut5_35d_R1.fq.gz Mut5_35d_R2.fq.gz fastq fastq 409858808.0 2029004.0 Mut5 35d R1.fq.gz 0:101 1:101 A:103983021;C:97241865;G:98716378;T:108891565;N:1025979 101 101     103983021 97241865 98716378 108891565 1025979 SRX5187231 SRS4193633 SRA827573 University of Oregon|Biology University of Oregon 2 0.76655 0.80882 0.0977 0.06882 0.74233 0.74308 0.45426 0.64072 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-09-06 Juvenile Juvenile Trunk Surface Structure
50931 50931 SRR8377231 SRX5187226 SRS4193628 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     Mut8 21d   strain:AB|age:21 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 8 mutant 21 dpf organism or animal                 Danio rerio amh mutant RNA seq Mut8 21d Mut8 21d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following {Amores 2011 #69}. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     Mut8_21d_R1.fq.gz Mut8_21d_R2.fq.gz fastq fastq 3969928422.0 19653111.0 Mut8 21d R1.fq.gz 0:101 1:101 A:987300533;C:959296323;G:980750463;T:1032651762;N:9929341 101 101     987300533 959296323 980750463 1032651762 9929341 SRX5187226 SRS4193628 SRA827573 University of Oregon|Biology University of Oregon 2 0.82211 0.8576 0.08315 0.05545 0.75538 0.75964 0.43397 0.59195 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-09-06 Larval Larval Trunk Surface Structure
50932 50932 SRR8377232 SRX5187225 SRS4193627 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     Mut8 35d   strain:AB|age:35 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 8 mutant 35 dpf organism or animal                 Danio rerio amh mutant RNA seq Mut8 35d Mut8 35d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following {Amores 2011 #69}. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     Mut8_35d_R2.fq.gz Mut8_35d_R1.fq.gz fastq fastq 45854.0 227.0 Mut8 35d R1.fq.gz 0:101 1:101 A:11862;C:10838;G:11042;T:11991;N:121 101 101     11862 10838 11042 11991 121 SRX5187225 SRS4193627 SRA827573 University of Oregon|Biology University of Oregon 2 0.69908 0.68966 0.08333 0.0862 0.99782 0.99827 0.54198 0.61538 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2018-12-28 Juvenile Juvenile Trunk Surface Structure
50933 50933 SRR8377233 SRX5187224 SRS4193626 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     Mut7 21d   strain:AB|age:21 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 7 mutant 21 dpf organism or animal                 Danio rerio amh mutant RNA seq Mut7 21d Mut7 21d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following {Amores 2011 #69}. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     Mut7_21d_R2.fq.gz Mut7_21d_R1.fq.gz fastq fastq 16321384264.0 80798932.0 Mut7 21d R1.fq.gz 0:101 1:101 A:4040702375;C:3970895885;G:4043152335;T:4225822477;N:40811192 101 101     4040702375 3970895885 4043152335 4225822477 40811192 SRX5187224 SRS4193626 SRA827573 University of Oregon|Biology University of Oregon 2 0.82167 0.85831 0.07887 0.05422 0.75781 0.76282 0.42354 0.59476 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-09-06 Larval Larval Trunk Surface Structure
50934 50934 SRR8377234 SRX5187223 SRS4193625 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     Mut7 35d   strain:AB|age:35 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 7 mutant 35 dpf organism or animal                 Danio rerio amh mutant RNA seq Mut7 35d Mut7 35d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following {Amores 2011 #69}. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     Mut7_35d_R1.fq.gz Mut7_35d_R2.fq.gz fastq fastq 482025328.0 2386264.0 Mut7 35d R1.fq.gz 0:101 1:101 A:121726092;C:114765680;G:117176132;T:127153823;N:1203601 101 101     121726092 114765680 117176132 127153823 1203601 SRX5187223 SRS4193625 SRA827573 University of Oregon|Biology University of Oregon 2 0.7944 0.81981 0.09158 0.06615 0.73868 0.74286 0.48604 0.60293 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-09-06 Juvenile Juvenile Trunk Surface Structure
50935 50935 SRR8377235 SRX5187222 SRS4193624 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     Mut6 21d   strain:AB|age:21 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 6 mutant 21 dpf organism or animal                 Danio rerio amh mutant RNA seq Mut6 21d Mut6 21d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following {Amores 2011 #69}. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     Mut6_21d_R1.fq.gz Mut6_21d_R2.fq.gz fastq fastq 294980600.0 1460300.0 Mut6 21d R1.fq.gz 0:101 1:101 A:73333474;C:71294880;G:72988229;T:76625001;N:739016 101 101     73333474 71294880 72988229 76625001 739016 SRX5187222 SRS4193624 SRA827573 University of Oregon|Biology University of Oregon 2 0.81307 0.85599 0.09007 0.06036 0.76319 0.76495 0.43194 0.60462 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-09-06 Larval Larval Trunk Surface Structure
50936 50936 SRR8377236 SRX5187221 SRS4193623 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     Mut6 35d   strain:AB|age:35 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 6 mutant 35 dpf organism or animal                 Danio rerio amh mutant RNA seq Mut6 35d Mut6 35d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following {Amores 2011 #69}. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     Mut6_35d_R2.fq.gz Mut6_35d_R1.fq.gz fastq fastq 547559178.0 2710689.0 Mut6 35d R1.fq.gz 0:101 1:101 A:142088966;C:126584543;G:128466439;T:149044813;N:1374417 101 101     142088966 126584543 128466439 149044813 1374417 SRX5187221 SRS4193623 SRA827573 University of Oregon|Biology University of Oregon 2 0.68203 0.72897 0.0848 0.06405 0.75982 0.75948 0.46606 0.62979 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2018-12-28 Juvenile Juvenile Trunk Surface Structure
50937 50937 SRR8377237 SRX5187220 SRS4193622 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     WT4 35d   strain:AB|age:35 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 4 wild type 35 dpf organism or animal                 Danio rerio amh mutant RNA seq WT4 35d WT4 35d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following Amores 2011. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     WT4_35d_R1.fq.gz WT4_35d_R2.fq.gz fastq fastq 739057804.0 3658702.0 WT4 35d R1.fq.gz 0:101 1:101 A:180459808;C:181418460;G:184830579;T:190499000;N:1849957 101 101     180459808 181418460 184830579 190499000 1849957 SRX5187220 SRS4193622 SRA827573 University of Oregon|Biology University of Oregon 2 0.80755 0.83958 0.08323 0.05532 0.73251 0.73115 0.43394 0.59528 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-09-06 Juvenile Juvenile Trunk Surface Structure
50938 50938 SRR8377238 SRX5187219 SRS4193621 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     WT5 21d   strain:AB|age:21 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 5 wild type 21 dpf organism or animal                 Danio rerio amh mutant RNA seq WT5 21d WT5 21d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following Amores 2011. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     WT5_21d_R2.fq.gz WT5_21d_R1.fq.gz fastq fastq 915198370.0 4530685.0 WT5 21d R1.fq.gz 0:101 1:101 A:229698310;C:218524850;G:223719886;T:240958214;N:2297110 101 101     229698310 218524850 223719886 240958214 2297110 SRX5187219 SRS4193621 SRA827573 University of Oregon|Biology University of Oregon 2 0.81599 0.84765 0.09039 0.06386 0.7501 0.75394 0.43936 0.59417 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2018-12-28 Larval Larval Trunk Surface Structure
50939 50939 SRR8377239 SRX5187218 SRS4193620 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     WT5 35d   strain:AB|age:35 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 5 wild type 35 dpf organism or animal                 Danio rerio amh mutant RNA seq WT5 35d WT5 35d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following Amores 2011. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     WT5_35d_R2.fq.gz WT5_35d_R1.fq.gz fastq fastq 2566933786.0 12707593.0 WT5 35d R1.fq.gz 0:101 1:101 A:633536222;C:624684514;G:640292815;T:661995540;N:6424695 101 101     633536222 624684514 640292815 661995540 6424695 SRX5187218 SRS4193620 SRA827573 University of Oregon|Biology University of Oregon 2 0.78006 0.81406 0.09856 0.06416 0.76246 0.76548 0.44739 0.61325 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-09-06 Juvenile Juvenile Trunk Surface Structure
50940 50940 SRR8377240 SRX5187217 SRS4193619 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     WT6 21d   strain:AB|age:21 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 6 wild type 21 dpf organism or animal                 Danio rerio amh mutant RNA seq WT6 21d WT6 21d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following Amores 2011. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     WT6_21d_R1.fq.gz WT6_21d_R2.fq.gz fastq fastq 1274131968.0 6307584.0 WT6 21d R1.fq.gz 0:101 1:101 A:310554655;C:313342370;G:320642902;T:326399747;N:3192294 101 101     310554655 313342370 320642902 326399747 3192294 SRX5187217 SRS4193619 SRA827573 University of Oregon|Biology University of Oregon 2 0.82612 0.86462 0.09725 0.05535 0.78159 0.78378 0.4273 0.6191 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-09-06 Larval Larval Trunk Surface Structure
50941 50941 SRR8377241 SRX5187216 SRS4193618 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     WT6 35d   strain:AB|age:35 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 6 wild type 35 dpf organism or animal                 Danio rerio amh mutant RNA seq WT6 35d WT6 35d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following Amores 2011. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     WT6_35d_R1.fq.gz WT6_35d_R2.fq.gz fastq fastq 3854126670.0 19079835.0 WT6 35d R1.fq.gz 0:101 1:101 A:954892191;C:939940975;G:950682732;T:998987524;N:9623248 101 101     954892191 939940975 950682732 998987524 9623248 SRX5187216 SRS4193618 SRA827573 University of Oregon|Biology University of Oregon 2 0.79771 0.83006 0.08571 0.06024 0.75984 0.76319 0.46268 0.60806 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-09-06 Juvenile Juvenile Trunk Surface Structure
50942 50942 SRR8377242 SRX5187215 SRS4193617 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     WT7 21d   strain:AB|age:21 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 7 wild type 21 dpf organism or animal                 Danio rerio amh mutant RNA seq WT7 21d WT7 21d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following Amores 2011. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     WT7_21d_R1.fq.gz WT7_21d_R2.fq.gz fastq fastq 809609940.0 4007970.0 WT7 21d R1.fq.gz 0:101 1:101 A:197254031;C:198233741;G:203686772;T:208409070;N:2026326 101 101     197254031 198233741 203686772 208409070 2026326 SRX5187215 SRS4193617 SRA827573 University of Oregon|Biology University of Oregon 2 0.82356 0.85925 0.08908 0.05166 0.76266 0.76662 0.40879 0.5883 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-09-06 Larval Larval Trunk Surface Structure
50943 50943 SRR8377243 SRX5187214 SRS4193616 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     WT7 35d   strain:AB|age:35 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 7 wild type 35 dpf organism or animal                 Danio rerio amh mutant RNA seq WT7 35d WT7 35d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following Amores 2011. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     WT7_35d_R1.fq.gz WT7_35d_R2.fq.gz fastq fastq 2039843268.0 10098234.0 WT7 35d R1.fq.gz 0:101 1:101 A:509345773;C:493700254;G:500220571;T:531465526;N:5111144 101 101     509345773 493700254 500220571 531465526 5111144 SRX5187214 SRS4193616 SRA827573 University of Oregon|Biology University of Oregon 2 0.80902 0.83668 0.09137 0.0654 0.75499 0.75763 0.44568 0.61746 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-09-06 Juvenile Juvenile Trunk Surface Structure
50944 50944 SRR8377244 SRX5187213 SRS4193615 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     WT8 21d   strain:AB|age:21 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 8 wild type 21 dpf organism or animal                 Danio rerio amh mutant RNA seq WT8 21d WT8 21d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following Amores 2011. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     WT8_21d_R1.fq.gz WT8_21d_R2.fq.gz fastq fastq 2465061752.0 12203276.0 WT8 21d R1.fq.gz 0:101 1:101 A:599019207;C:610254116;G:621365405;T:628247400;N:6175624 101 101     599019207 610254116 621365405 628247400 6175624 SRX5187213 SRS4193615 SRA827573 University of Oregon|Biology University of Oregon 2 0.83579 0.86839 0.14684 0.08307 0.77384 0.77437 0.38619 0.61336 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-09-06 Larval Larval Trunk Surface Structure
50945 50945 SRR8377245 SRX5187212 SRS4193614 SRP174644 PRJNA512103 Danio rerio amh mutant RNA Seq PRJNA512103 Other For 21dpf and 35dpf juvenile zebrafish trunk tissue was isolated by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. For adults ovary and testis was dissected separately from other tissues. Total RNA was extracted using the Ribopure Kit Thermo Fisher and polyA mRNA was enriched using Dynabeads Thermo Fisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex™ qRNA seq kit BIOO Scientific. Libraries were normalized to 2.3nM multiplexed and evaluated by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.   pubmed:31399485     WT8 35d   strain:AB|age:35 dpf determined|tissue:trunk|biomaterial provider:Zebrafish Facility at the University of Oregon|collected by:Yilin Yan|replicate:biological replicate 8 wild type 35 dpf organism or animal                 Danio rerio amh mutant RNA seq WT8 35d WT8 35d Zebrafish were euthanized in Tricaine. We isolated gonad containing trunk of the animals by removing the anterior of the fish from just posterior of the pectoral fin and removing the caudal peduncle posterior to the anus. Trunks were individually homogenized in 200ul Trizol. Total RNA was extracted following Amores 2011. Total RNA was enriched for mRNA using Dynabeads Oligodt25 ThermoFisher. We constructed indexed strand specific cDNA sequencing libraries using the NEXTflex qRNA seq kit BIOO Scientific. Library concentrations were quantified using a Qubit fluorometer Life Technologies normalized to a concentration of 2.3nM and multiplexed. Prior to sequencing we further evaluated the quality of the multiplexed library by quantitative real time PCR using the Kapa Library Quantification Kit Kapa Biosystems. One lane of paired end 100 base pair bp sequencing was performed on an Illumina HiSeq 4000.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP174644     WT8_35d_R1.fq.gz WT8_35d_R2.fq.gz fastq fastq 1932194842.0 9565321.0 WT8 35d R1.fq.gz 0:101 1:101 A:482699320;C:469072746;G:471446663;T:504153836;N:4822277 101 101     482699320 469072746 471446663 504153836 4822277 SRX5187212 SRS4193614 SRA827573 University of Oregon|Biology University of Oregon 2 0.78256 0.81142 0.09076 0.0636 0.76343 0.76808 0.4583 0.63397 101 101 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   United States 2019-09-06 Juvenile Juvenile Trunk Surface Structure
53490 53490 SRR9945454 SRX6694025 SRS5251307 SRP218026 PRJNA557895 The origin and evolution of RNA editing in Metazoan PRJNA557895 Other We shed light on the origin and evolution of RNA editing in Metazoan by selected representative 22 species 18 of which were sequenced by ourselves.         Replicate 2 for D.rerio   isolate:Drer 2|age:not collected|dev stage:not collected|sex:not collected|tissue:whole body|BioSampleModel:Model organism or animal                 Strand specific RNA seq of Danio rerio rep2: whole body DrerWHANIddyEAAORAAPEI 218 DrerWHANIddyEAAORAAPEI 218 Both genomic DNA and total RNA were extracted from the whole body of an adult. The strand specific RNA seq library was prepared using the TruSeq Stranded mRNA LT Sample Prep RS 122 2101 Illumina and sequenced on the Illumina HiSeq 4000 platform according to the manufacturer's instructions. The DNA library was prepared using the MGIEasy DNA Library Prep Kit V1.1 MGI Tech and sequenced on the BGISEQ 500RS platform according to the manufacturer's instructions.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP218026     170403_I133_FCHGL72BBXX_L7_WHANIddyEAAORAAPEI-218_1.fq.gz 170403_I133_FCHGL72BBXX_L7_WHANIddyEAAORAAPEI-218_2.fq.gz 170403_I133_FCHGL72BBXX_L8_WHANIddyEAAORAAPEI-218_1.fq.gz 170403_I133_FCHGL72BBXX_L8_WHANIddyEAAORAAPEI-218_2.fq.gz fastq fastq fastq fastq 36897471600.0 184487358.0 170403 I133 FCHGL72BBXX L7 WHANIddyEAAORAAPEI 218 1.fq.gz 0:100 1:100 A:9529576187;C:8838331599;G:9026934437;T:9496422810;N:6206567 100 100     9529576187 8838331599 9026934437 9496422810 6206567 SRX6694025 SRS5251307 SRA937931 Kunming Institute of Zoology, Chinese Academy of Sciences|State Key Laboratory of Genetic Resources and Evol Kunming Institute of Zoology, Chinese Academy of Sciences 2 0.95202 0.95483 0.0516 0.0503 0.70853 0.71224 0.50665 0.50669 100 100 B B biological fallback assumption illumina hiseq_era unknown poly_a trueseq bulk unknown unknown   China 2019-08-11 Adult Adult Trunk Surface Structure
53491 53491 SRR9945455 SRX6694024 SRS5251306 SRP218026 PRJNA557895 The origin and evolution of RNA editing in Metazoan PRJNA557895 Other We shed light on the origin and evolution of RNA editing in Metazoan by selected representative 22 species 18 of which were sequenced by ourselves.         Replicate 1 for D.rerio   isolate:Drer 1|age:not collected|dev stage:not collected|sex:not collected|tissue:whole body|BioSampleModel:Model organism or animal                 Strand specific RNA seq of Danio rerio rep1: whole body DrerWHINSpmnpBABRAAPEI 219 DrerWHINSpmnpBABRAAPEI 219 Both genomic DNA and total RNA were extracted from the whole body of an adult. The strand specific RNA seq library was prepared using the TruSeq Stranded mRNA LT Sample Prep RS 122 2101 Illumina and the DNA library was constructed according to the standard protocol provided by Illumina San Diego CA USA. Paired end sequencing was performed for the two libraries on the HiSeq 4000 platform according to the manufacturer's instructions.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP218026     160415_I136_FCH7MJKBBXX_L4_WHINSpmnpBABRAAPEI-219_1.fq.gz 160415_I136_FCH7MJKBBXX_L4_WHINSpmnpBABRAAPEI-219_2.fq.gz fastq fastq 23885022200.0 119425111.0 160415 I136 FCH7MJKBBXX L4 WHINSpmnpBABRAAPEI 219 1.fq.gz 0:100 1:100 A:6260820125;C:5693318287;G:5662248033;T:6264079999;N:4555756 100 100     6260820125 5693318287 5662248033 6264079999 4555756 SRX6694024 SRS5251306 SRA937931 Kunming Institute of Zoology, Chinese Academy of Sciences|State Key Laboratory of Genetic Resources and Evol Kunming Institute of Zoology, Chinese Academy of Sciences 2 0.9539 0.95672 0.05875 0.05826 0.70782 0.70885 0.50825 0.51884 100 100 B B biological fallback assumption illumina hiseq_era unknown poly_a trueseq bulk unknown unknown   China 2019-08-11 Adult Adult Trunk Surface Structure
53492 53492 SRR9945460 SRX6694019 SRS5251305 SRP218026 PRJNA557895 The origin and evolution of RNA editing in Metazoan PRJNA557895 Other We shed light on the origin and evolution of RNA editing in Metazoan by selected representative 22 species 18 of which were sequenced by ourselves.         Replicate 3 for D.rerio   isolate:Drer 3|age:not collected|dev stage:not collected|sex:not collected|tissue:whole body|BioSampleModel:Model organism or animal                 Strand specific RNA seq of Danio rerio rep3: whole body DrerWHANIddyEAAPRAAPEI 219 DrerWHANIddyEAAPRAAPEI 219 Both genomic DNA and total RNA were extracted from the whole body of an adult. The strand specific RNA seq library was prepared using the TruSeq Stranded mRNA LT Sample Prep RS 122 2101 Illumina and sequenced on the Illumina HiSeq 4000 platform according to the manufacturer's instructions. The DNA library was prepared using the MGIEasy DNA Library Prep Kit V1.1 MGI Tech and sequenced on the BGISEQ 500RS platform according to the manufacturer's instructions.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP218026     170403_I133_FCHGL72BBXX_L6_WHANIddyEAAPRAAPEI-219_1.fq.gz 170403_I133_FCHGL72BBXX_L6_WHANIddyEAAPRAAPEI-219_2.fq.gz fastq fastq 28065364200.0 140326821.0 170403 I133 FCHGL72BBXX L6 WHANIddyEAAPRAAPEI 219 1.fq.gz 0:100 1:100 A:7411372143;C:6577171300;G:6693925569;T:7377537100;N:5358088 100 100     7411372143 6577171300 6693925569 7377537100 5358088 SRX6694019 SRS5251305 SRA937931 Kunming Institute of Zoology, Chinese Academy of Sciences|State Key Laboratory of Genetic Resources and Evol Kunming Institute of Zoology, Chinese Academy of Sciences 2 0.94764 0.95274 0.06893 0.06709 0.68966 0.69154 0.49095 0.52264 100 100 B B biological fallback assumption illumina hiseq_era unknown poly_a trueseq bulk unknown unknown   China 2019-08-11 Adult Adult Trunk Surface Structure
61714 61714 SRR13015572 SRX9466664 SRS7678789 SRP291905 PRJNA674002 A to I RNA editing in zebrafish during development PRJNA674002 Other Here we investigated A to I RNA editing in early zebrafish development and in the adult brain. Raw unmapped sequencing output from stranded mRNA libraries can be found under this accession.       zebrafish embryos 72hpf body single cross 2 72hpf body.rep2   strain:AB wildtype|dev stage:72 hpf|sex:unknown|tissue:body|embryos derived by cross:single cross 2|biological replicate:replicate 2|assay type:mRNA seq|BioSampleModel:Model organism or animal                 mRNA seq of whole zebrafish embryos wildtype AB 72 hpf body single cross 2 Rep2 lane2 PJ KH 026 2 PJ KH 026 2 stranded mRNA     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP291905     PJ_KH_026_S26_L004_R1_001.fastq.gz PJ_KH_026_S26_L004_R2_001.fastq.gz fastq fastq 5649479642.0 21830080.0 PJ KH 026 S26 L004 R1 001.fastq.gz 0:151.00 1:151 A:1489202701;C:1340215887;G:1394009703;T:1424911003;N:1140348 151 151     1489202701 1340215887 1394009703 1424911003 1140348 SRX9466664 SRS7678789 SRA1153075 MDC Berlin|BIMSB MDC Berlin 2 0.94314 0.94507 0.06432 0.06324 0.73419 0.73756 0.43857 0.43838 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2020-11-10 Larval Larval Trunk Surface Structure
61715 61715 SRR13015573 SRX9466663 SRS7678789 SRP291905 PRJNA674002 A to I RNA editing in zebrafish during development PRJNA674002 Other Here we investigated A to I RNA editing in early zebrafish development and in the adult brain. Raw unmapped sequencing output from stranded mRNA libraries can be found under this accession.       zebrafish embryos 72hpf body single cross 2 72hpf body.rep2   strain:AB wildtype|dev stage:72 hpf|sex:unknown|tissue:body|embryos derived by cross:single cross 2|biological replicate:replicate 2|assay type:mRNA seq|BioSampleModel:Model organism or animal                 mRNA seq of whole zebrafish embryos wildtype AB 72 hpf body single cross 2 Rep2 lane1 PJ KH 026 1 PJ KH 026 1 stranded mRNA     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP291905     PJ_KH_026_S26_L003_R1_001.fastq.gz PJ_KH_026_S26_L003_R2_001.fastq.gz fastq fastq 6480541594.0 21458747.0 PJ KH 026 S26 L003 R1 001.fastq.gz 0:151 1:151 A:1693165095;C:1547886416;G:1588645184;T:1649960022;N:884877 151 151     1693165095 1547886416 1588645184 1649960022 884877 SRX9466663 SRS7678789 SRA1153075 MDC Berlin|BIMSB MDC Berlin 2 0.94348 0.94571 0.06373 0.06239 0.70554 0.70938 0.41651 0.43674 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2020-11-10 Larval Larval Trunk Surface Structure
61718 61718 SRR13015576 SRX9466660 SRS7678787 SRP291905 PRJNA674002 A to I RNA editing in zebrafish during development PRJNA674002 Other Here we investigated A to I RNA editing in early zebrafish development and in the adult brain. Raw unmapped sequencing output from stranded mRNA libraries can be found under this accession.       zebrafish embryos 72hpf body single cross 2 72hpf body.rep1   strain:AB wildtype|dev stage:72 hpf|sex:unknown|tissue:body|embryos derived by cross:single cross 2|biological replicate:replicate 1|assay type:mRNA seq|BioSampleModel:Model organism or animal                 mRNA seq of whole zebrafish embryos wildtype AB 72 hpf body single cross 2 Rep2 lane2 PJ KH 024 2 PJ KH 024 2 stranded mRNA     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP291905     PJ_KH_024_S24_L004_R1_001.fastq.gz PJ_KH_024_S24_L004_R2_001.fastq.gz fastq fastq 6944611404.0 22995402.0 PJ KH 024 S24 L004 R1 001.fastq.gz 0:151 1:151 A:1759014075;C:1717423563;G:1761324888;T:1705559501;N:1289377 151 151     1759014075 1717423563 1761324888 1705559501 1289377 SRX9466660 SRS7678787 SRA1153075 MDC Berlin|BIMSB MDC Berlin 2 0.94444 0.94481 0.02306 0.02202 0.80109 0.8043 0.44217 0.42367 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2020-11-10 Larval Larval Trunk Surface Structure
61719 61719 SRR13015577 SRX9466659 SRS7678787 SRP291905 PRJNA674002 A to I RNA editing in zebrafish during development PRJNA674002 Other Here we investigated A to I RNA editing in early zebrafish development and in the adult brain. Raw unmapped sequencing output from stranded mRNA libraries can be found under this accession.       zebrafish embryos 72hpf body single cross 2 72hpf body.rep1   strain:AB wildtype|dev stage:72 hpf|sex:unknown|tissue:body|embryos derived by cross:single cross 2|biological replicate:replicate 1|assay type:mRNA seq|BioSampleModel:Model organism or animal                 mRNA seq of whole zebrafish embryos wildtype AB 72 hpf body single cross 2 Rep2 lane1 PJ KH 024 1 PJ KH 024 1 stranded mRNA     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP291905     PJ_KH_024_S24_L003_R1_001.fastq.gz PJ_KH_024_S24_L003_R2_001.fastq.gz fastq fastq 6904601538.0 22862919.0 PJ KH 024 S24 L003 R1 001.fastq.gz 0:151 1:151 A:1750292886;C:1705927568;G:1751892572;T:1695551341;N:937171 151 151     1750292886 1705927568 1751892572 1695551341 937171 SRX9466659 SRS7678787 SRA1153075 MDC Berlin|BIMSB MDC Berlin 2 0.94552 0.94651 0.02321 0.02249 0.8017 0.80474 0.45014 0.44702 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2020-11-10 Larval Larval Trunk Surface Structure
61723 61723 SRR13015581 SRX9466655 SRS7678784 SRP291905 PRJNA674002 A to I RNA editing in zebrafish during development PRJNA674002 Other Here we investigated A to I RNA editing in early zebrafish development and in the adult brain. Raw unmapped sequencing output from stranded mRNA libraries can be found under this accession.       zebrafish embryos 72hpf body single cross 1 72hpf body.rep2   strain:AB wildtype|dev stage:72 hpf|sex:unknown|tissue:body|embryos derived by cross:single cross 1|biological replicate:replicate 2|assay type:mRNA seq|BioSampleModel:Model organism or animal                 mRNA seq of whole zebrafish embryos wildtype AB 72 hpf body single cross 1 Rep2 lane2 PJ KH 022 2 PJ KH 022 2 stranded mRNA     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP291905     PJ_KH_022_S22_L004_R1_001.fastq.gz PJ_KH_022_S22_L004_R2_001.fastq.gz fastq fastq 6540287462.0 21656581.0 PJ KH 022 S22 L004 R1 001.fastq.gz 0:151 1:151 A:1786208349;C:1481962568;G:1534306317;T:1736589429;N:1220799 151 151     1786208349 1481962568 1534306317 1736589429 1220799 SRX9466655 SRS7678784 SRA1153075 MDC Berlin|BIMSB MDC Berlin 2 0.94138 0.9425 0.12082 0.11747 0.65721 0.66042 0.46205 0.46186 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2020-11-10 Larval Larval Trunk Surface Structure
61724 61724 SRR13015582 SRX9466654 SRS7678784 SRP291905 PRJNA674002 A to I RNA editing in zebrafish during development PRJNA674002 Other Here we investigated A to I RNA editing in early zebrafish development and in the adult brain. Raw unmapped sequencing output from stranded mRNA libraries can be found under this accession.       zebrafish embryos 72hpf body single cross 1 72hpf body.rep2   strain:AB wildtype|dev stage:72 hpf|sex:unknown|tissue:body|embryos derived by cross:single cross 1|biological replicate:replicate 2|assay type:mRNA seq|BioSampleModel:Model organism or animal                 mRNA seq of whole zebrafish embryos wildtype AB 72 hpf body single cross 1 Rep2 lane1 PJ KH 022 1 PJ KH 022 1 stranded mRNA     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP291905     PJ_KH_022_S22_L003_R1_001.fastq.gz PJ_KH_022_S22_L003_R2_001.fastq.gz fastq fastq 6474457200.0 21438600.0 PJ KH 022 S22 L003 R1 001.fastq.gz 0:151 1:151 A:1769622890;C:1465842475;G:1519843191;T:1718272687;N:875957 151 151     1769622890 1465842475 1519843191 1718272687 875957 SRX9466654 SRS7678784 SRA1153075 MDC Berlin|BIMSB MDC Berlin 2 0.94115 0.94343 0.1202 0.11881 0.65821 0.66117 0.46649 0.4638 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2020-11-10 Larval Larval Trunk Surface Structure
61725 61725 SRR13015583 SRX9466653 SRS7678783 SRP291905 PRJNA674002 A to I RNA editing in zebrafish during development PRJNA674002 Other Here we investigated A to I RNA editing in early zebrafish development and in the adult brain. Raw unmapped sequencing output from stranded mRNA libraries can be found under this accession.       zebrafish embryos 72hpf body single cross 1 72hpf body.rep1   strain:AB wildtype|dev stage:72 hpf|sex:unknown|tissue:body|embryos derived by cross:single cross 1|biological replicate:replicate 1|assay type:mRNA seq|BioSampleModel:Model organism or animal                 mRNA seq of whole zebrafish embryos wildtype AB 72 hpf body single cross 1 Rep1 lane2 PJ KH 021 2 PJ KH 021 2 stranded mRNA     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP291905     PJ_KH_021_S21_L004_R1_001.fastq.gz PJ_KH_021_S21_L004_R2_001.fastq.gz fastq fastq 5800379610.0 19206555.0 PJ KH 021 S21 L004 R1 001.fastq.gz 0:151 1:151 A:1532344506;C:1366019833;G:1411818856;T:1489119439;N:1076976 151 151     1532344506 1366019833 1411818856 1489119439 1076976 SRX9466653 SRS7678783 SRA1153075 MDC Berlin|BIMSB MDC Berlin 2 0.95239 0.9534 0.07658 0.07531 0.71214 0.71498 0.42207 0.42549 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2020-11-10 Larval Larval Trunk Surface Structure
61726 61726 SRR13015584 SRX9466652 SRS7678783 SRP291905 PRJNA674002 A to I RNA editing in zebrafish during development PRJNA674002 Other Here we investigated A to I RNA editing in early zebrafish development and in the adult brain. Raw unmapped sequencing output from stranded mRNA libraries can be found under this accession.       zebrafish embryos 72hpf body single cross 1 72hpf body.rep1   strain:AB wildtype|dev stage:72 hpf|sex:unknown|tissue:body|embryos derived by cross:single cross 1|biological replicate:replicate 1|assay type:mRNA seq|BioSampleModel:Model organism or animal                 mRNA seq of whole zebrafish embryos wildtype AB 72 hpf body single cross 1 Rep1 lane1 PJ KH 021 1 PJ KH 021 1 stranded mRNA     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP291905     PJ_KH_021_S21_L003_R1_001.fastq.gz PJ_KH_021_S21_L003_R2_001.fastq.gz fastq fastq 5697753064.0 18866732.0 PJ KH 021 S21 L003 R1 001.fastq.gz 0:151 1:151 A:1506316309;C:1340552139;G:1387834595;T:1462277778;N:772243 151 151     1506316309 1340552139 1387834595 1462277778 772243 SRX9466652 SRS7678783 SRA1153075 MDC Berlin|BIMSB MDC Berlin 2 0.95211 0.95438 0.07713 0.07541 0.71167 0.71601 0.43272 0.4257 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2020-11-10 Larval Larval Trunk Surface Structure
61775 61775 SRR13015641 SRX9466595 SRS7678751 SRP291905 PRJNA674002 A to I RNA editing in zebrafish during development PRJNA674002 Other Here we investigated A to I RNA editing in early zebrafish development and in the adult brain. Raw unmapped sequencing output from stranded mRNA libraries can be found under this accession.       body tissue of parents from cross 2 male cross 2 adult body transcriptome   strain:AB wildtype|dev stage:adult|sex:male|tissue:body|embryos derived by cross:single cross 2|assay type:mRNA seq|BioSampleModel:Model organism or animal                 mRNA seq body zebrafish male from single cross 2 lane2 PJ KH 036 2 PJ KH 036 2 stranded mRNA     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP291905     PJ_KH_036_S36_L004_R1_001.fastq.gz PJ_KH_036_S36_L004_R2_001.fastq.gz fastq fastq 6478281728.0 21451264.0 PJ KH 036 S36 L004 R1 001.fastq.gz 0:151 1:151 A:1648862369;C:1591549903;G:1631652727;T:1605015568;N:1201161 151 151     1648862369 1591549903 1631652727 1605015568 1201161 SRX9466595 SRS7678751 SRA1153075 MDC Berlin|BIMSB MDC Berlin 2 0.9608 0.96246 0.02387 0.02325 0.78386 0.78608 0.5048 0.50714 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2020-11-10 Adult Adult Trunk Surface Structure
61776 61776 SRR13015642 SRX9466594 SRS7678751 SRP291905 PRJNA674002 A to I RNA editing in zebrafish during development PRJNA674002 Other Here we investigated A to I RNA editing in early zebrafish development and in the adult brain. Raw unmapped sequencing output from stranded mRNA libraries can be found under this accession.       body tissue of parents from cross 2 male cross 2 adult body transcriptome   strain:AB wildtype|dev stage:adult|sex:male|tissue:body|embryos derived by cross:single cross 2|assay type:mRNA seq|BioSampleModel:Model organism or animal                 mRNA seq body zebrafish male from single cross 2 lane1 PJ KH 036 1 PJ KH 036 1 stranded mRNA     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP291905     PJ_KH_036_S36_L003_R1_001.fastq.gz PJ_KH_036_S36_L003_R2_001.fastq.gz fastq fastq 6439955814.0 21324357.0 PJ KH 036 S36 L003 R1 001.fastq.gz 0:151 1:151 A:1639459063;C:1581604775;G:1623817049;T:1594197994;N:876933 151 151     1639459063 1581604775 1623817049 1594197994 876933 SRX9466594 SRS7678751 SRA1153075 MDC Berlin|BIMSB MDC Berlin 2 0.96081 0.96284 0.02389 0.02312 0.78393 0.78713 0.50411 0.50535 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2020-11-10 Adult Adult Trunk Surface Structure
61777 61777 SRR13015643 SRX9466593 SRS7678749 SRP291905 PRJNA674002 A to I RNA editing in zebrafish during development PRJNA674002 Other Here we investigated A to I RNA editing in early zebrafish development and in the adult brain. Raw unmapped sequencing output from stranded mRNA libraries can be found under this accession.       body tissue of parents from cross 2 female cross 2 adult body transcriptome   strain:AB wildtype|dev stage:adult|sex:female|tissue:body|embryos derived by cross:single cross 2|assay type:mRNA seq|BioSampleModel:Model organism or animal                 mRNA seq body zebrafish female from single cross 2 lane2 PJ KH 035 2 PJ KH 035 2 stranded mRNA     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP291905     PJ_KH_035_S35_L004_R1_001.fastq.gz PJ_KH_035_S35_L004_R2_001.fastq.gz fastq fastq 9422957190.0 31201845.0 PJ KH 035 S35 L004 R1 001.fastq.gz 0:151 1:151 A:2404649667;C:2302545232;G:2348124627;T:2365889998;N:1747666 151 151     2404649667 2302545232 2348124627 2365889998 1747666 SRX9466593 SRS7678749 SRA1153075 MDC Berlin|BIMSB MDC Berlin 2 0.94329 0.9456 0.02717 0.02634 0.71029 0.71451 0.46936 0.47075 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2020-11-10 Adult Adult Trunk Surface Structure
61779 61779 SRR13015645 SRX9466591 SRS7678749 SRP291905 PRJNA674002 A to I RNA editing in zebrafish during development PRJNA674002 Other Here we investigated A to I RNA editing in early zebrafish development and in the adult brain. Raw unmapped sequencing output from stranded mRNA libraries can be found under this accession.       body tissue of parents from cross 2 female cross 2 adult body transcriptome   strain:AB wildtype|dev stage:adult|sex:female|tissue:body|embryos derived by cross:single cross 2|assay type:mRNA seq|BioSampleModel:Model organism or animal                 mRNA seq body zebrafish female from single cross 2 lane1 PJ KH 035 1 PJ KH 035 1 stranded mRNA     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP291905     PJ_KH_035_S35_L003_R1_001.fastq.gz PJ_KH_035_S35_L003_R2_001.fastq.gz fastq fastq 9366027774.0 31013337.0 PJ KH 035 S35 L003 R1 001.fastq.gz 0:151 1:151 A:2391627126;C:2287177887;G:2335767866;T:2350185771;N:1269124 151 151     2391627126 2287177887 2335767866 2350185771 1269124 SRX9466591 SRS7678749 SRA1153075 MDC Berlin|BIMSB MDC Berlin 2 0.94406 0.94614 0.02757 0.02656 0.70968 0.71366 0.468 0.46571 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2020-11-10 Adult Adult Trunk Surface Structure
61780 61780 SRR13015646 SRX9466590 SRS7678748 SRP291905 PRJNA674002 A to I RNA editing in zebrafish during development PRJNA674002 Other Here we investigated A to I RNA editing in early zebrafish development and in the adult brain. Raw unmapped sequencing output from stranded mRNA libraries can be found under this accession.       body tissue of parents from cross 1 male cross 1 adult body transcriptome   strain:AB wildtype|dev stage:adult|sex:male|tissue:body|embryos derived by cross:single cross 1|assay type:mRNA seq|BioSampleModel:Model organism or animal                 mRNA seq body zebrafish male from single cross 1 lane2 PJ KH 034 2 PJ KH 034 2 stranded mRNA     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP291905     PJ_KH_034_S34_L004_R1_001.fastq.gz PJ_KH_034_S34_L004_R2_001.fastq.gz fastq fastq 7735112712.0 25612956.0 PJ KH 034 S34 L004 R1 001.fastq.gz 0:151 1:151 A:1974870696;C:1890581361;G:1943734005;T:1924490964;N:1435686 151 151     1974870696 1890581361 1943734005 1924490964 1435686 SRX9466590 SRS7678748 SRA1153075 MDC Berlin|BIMSB MDC Berlin 2 0.96448 0.966 0.03488 0.03342 0.72594 0.72985 0.49998 0.49893 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2020-11-10 Adult Adult Trunk Surface Structure
61781 61781 SRR13015647 SRX9466589 SRS7678748 SRP291905 PRJNA674002 A to I RNA editing in zebrafish during development PRJNA674002 Other Here we investigated A to I RNA editing in early zebrafish development and in the adult brain. Raw unmapped sequencing output from stranded mRNA libraries can be found under this accession.       body tissue of parents from cross 1 male cross 1 adult body transcriptome   strain:AB wildtype|dev stage:adult|sex:male|tissue:body|embryos derived by cross:single cross 1|assay type:mRNA seq|BioSampleModel:Model organism or animal                 mRNA seq body zebrafish male from single cross 1 lane1 PJ KH 034 1 PJ KH 034 1 stranded mRNA     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP291905     PJ_KH_034_S34_L003_R1_001.fastq.gz PJ_KH_034_S34_L003_R2_001.fastq.gz fastq fastq 7674468092.0 25412146.0 PJ KH 034 S34 L003 R1 001.fastq.gz 0:151 1:151 A:1959722716;C:1874876878;G:1930984650;T:1907843658;N:1040190 151 151     1959722716 1874876878 1930984650 1907843658 1040190 SRX9466589 SRS7678748 SRA1153075 MDC Berlin|BIMSB MDC Berlin 2 0.96342 0.9657 0.03463 0.03334 0.72638 0.73196 0.49758 0.50234 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2020-11-10 Adult Adult Trunk Surface Structure
61782 61782 SRR13015648 SRX9466588 SRS7678747 SRP291905 PRJNA674002 A to I RNA editing in zebrafish during development PRJNA674002 Other Here we investigated A to I RNA editing in early zebrafish development and in the adult brain. Raw unmapped sequencing output from stranded mRNA libraries can be found under this accession.       body tissue of parents from cross 1 female cross 1 adult body transcriptome   strain:AB wildtype|dev stage:adult|sex:female|tissue:body|embryos derived by cross:single cross 1|assay type:mRNA seq|BioSampleModel:Model organism or animal                 mRNA seq body zebrafish female from single cross 1 lane2 PJ KH 033 2 PJ KH 033 2 stranded mRNA     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP291905     PJ_KH_033_S33_L004_R1_001.fastq.gz PJ_KH_033_S33_L004_R2_001.fastq.gz fastq fastq 6190583240.0 20498620.0 PJ KH 033 S33 L004 R1 001.fastq.gz 0:151 1:151 A:1564701976;C:1533323455;G:1577799625;T:1513606117;N:1152067 151 151     1564701976 1533323455 1577799625 1513606117 1152067 SRX9466588 SRS7678747 SRA1153075 MDC Berlin|BIMSB MDC Berlin 2 0.95429 0.95588 0.02079 0.01982 0.75779 0.76065 0.44557 0.45493 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2020-11-10 Adult Adult Trunk Surface Structure
61783 61783 SRR13015649 SRX9466587 SRS7678747 SRP291905 PRJNA674002 A to I RNA editing in zebrafish during development PRJNA674002 Other Here we investigated A to I RNA editing in early zebrafish development and in the adult brain. Raw unmapped sequencing output from stranded mRNA libraries can be found under this accession.       body tissue of parents from cross 1 female cross 1 adult body transcriptome   strain:AB wildtype|dev stage:adult|sex:female|tissue:body|embryos derived by cross:single cross 1|assay type:mRNA seq|BioSampleModel:Model organism or animal                 mRNA seq body zebrafish female from single cross 1 lane1 PJ KH 033 1 PJ KH 033 1 stranded mRNA     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 2500   SRP291905     PJ_KH_033_S33_L003_R1_001.fastq.gz PJ_KH_033_S33_L003_R2_001.fastq.gz fastq fastq 6121465406.0 20269753.0 PJ KH 033 S33 L003 R1 001.fastq.gz 0:151 1:151 A:1547607194;C:1515704901;G:1561793302;T:1495528175;N:831834 151 151     1547607194 1515704901 1561793302 1495528175 831834 SRX9466587 SRS7678747 SRA1153075 MDC Berlin|BIMSB MDC Berlin 2 0.9549 0.95671 0.02143 0.02065 0.75844 0.76138 0.49503 0.50077 151 151 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   Germany 2020-11-10 Adult Adult Trunk Surface Structure
66727 66727 SRR16494150 SRX12697149 SRS10647152 SRP342232 PRJNA772880 Bisphenol S affects zebrafish RNA seq analysis PRJNA772880 Other RNAseq data of 48 hpf zebrafish under bisphenol S     BPS1 3 RNA seq of zebrafish at 48 hpf in DMSO exposed FKRO210105138 1A   isolate:AB type|ecotype:AB type|age:1 year|dev stage:48 hpf|sex:not applicable|tissue:all body|biomaterial provider:ecotoxicology of OUC|ID:replicate=6|BioSampleModel:Model organism or animal                 RNA seq of zebrafish at 48 hpf : 1g/L bisohenol exposed FRAS210076288 1r FRAS210076288 1r The first cDNA strand was synthesized in the m MulV reverse transcriptase system and then the RNA strand was degraded by RNaseH. The second strand of cDNA was synthesized in the DNA polymerase I system. AMPure XPbeads were used to screen the cDNA from 370 bp to 420 bp. PCR amplification was performed and PCR products were purified again with AMPure XP Beads to obtain the library.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   SRP342232     BPS1_3_1.fq.gz BPS1_3_2.fq.gz fastq fastq 7167849600.0 23892832.0 BPS1 3 1.fq.gz 0:150 1:150 A:1918014367;C:1678861019;G:1677677143;T:1893251281;N:45790 150 150     1918014367 1678861019 1677677143 1893251281 45790 SRX12697149 SRS10647152 SRA1313827 Ocean University of China|College of Marine Life Sciences Ocean University of China 2 0.95027 0.95031 0.10013 0.10018 0.67789 0.67771 0.45849 0.45672 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2021-10-20 Multi-stage Multi-stage Trunk Surface Structure
66728 66728 SRR16494151 SRX12697148 SRS10647151 SRP342232 PRJNA772880 Bisphenol S affects zebrafish RNA seq analysis PRJNA772880 Other RNAseq data of 48 hpf zebrafish under bisphenol S     BPS1 2 RNA seq of zebrafish at 48 hpf in DMSO exposed FKRO210105137 1A   isolate:AB type|ecotype:AB type|age:1 year|dev stage:48 hpf|sex:not applicable|tissue:all body|biomaterial provider:ecotoxicology of OUC|ID:replicate=5|BioSampleModel:Model organism or animal                 RNA seq of zebrafish at 48 hpf : 1g/L bisohenol exposed FRAS210076287 1r FRAS210076287 1r The first cDNA strand was synthesized in the m MulV reverse transcriptase system and then the RNA strand was degraded by RNaseH. The second strand of cDNA was synthesized in the DNA polymerase I system. AMPure XPbeads were used to screen the cDNA from 370 bp to 420 bp. PCR amplification was performed and PCR products were purified again with AMPure XP Beads to obtain the library.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   SRP342232     BPS1_2_1.fq.gz BPS1_2_2.fq.gz fastq fastq 7612619700.0 25375399.0 BPS1 2 1.fq.gz 0:150 1:150 A:2031729658;C:1792968404;G:1787711984;T:1999989075;N:220579 150 150     2031729658 1792968404 1787711984 1999989075 220579 SRX12697148 SRS10647151 SRA1313827 Ocean University of China|College of Marine Life Sciences Ocean University of China 2 0.95101 0.95113 0.09524 0.09456 0.68274 0.68318 0.45837 0.45319 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2021-10-20 Multi-stage Multi-stage Trunk Surface Structure
66729 66729 SRR16494152 SRX12697147 SRS10647150 SRP342232 PRJNA772880 Bisphenol S affects zebrafish RNA seq analysis PRJNA772880 Other RNAseq data of 48 hpf zebrafish under bisphenol S     BPS1 1 RNA seq of zebrafish at 48 hpf in DMSO exposed FKRO210105136 1A   isolate:AB type|ecotype:AB type|age:1 year|dev stage:48 hpf|sex:not applicable|tissue:all body|biomaterial provider:ecotoxicology of OUC|ID:replicate=4|BioSampleModel:Model organism or animal                 RNA seq of zebrafish at 48 hpf : 1g/L bisohenol exposed FRAS210076286 1r FRAS210076286 1r The first cDNA strand was synthesized in the m MulV reverse transcriptase system and then the RNA strand was degraded by RNaseH. The second strand of cDNA was synthesized in the DNA polymerase I system. AMPure XPbeads were used to screen the cDNA from 370 bp to 420 bp. PCR amplification was performed and PCR products were purified again with AMPure XP Beads to obtain the library.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   SRP342232     BPS1_1_1.fq.gz BPS1_1_2.fq.gz fastq fastq 6244935600.0 20816452.0 BPS1 1 1.fq.gz 0:150 1:150 A:1675323145;C:1456410435;G:1458522814;T:1654433698;N:245508 150 150     1675323145 1456410435 1458522814 1654433698 245508 SRX12697147 SRS10647150 SRA1313827 Ocean University of China|College of Marine Life Sciences Ocean University of China 2 0.94597 0.94597 0.10252 0.1028 0.67913 0.67963 0.4519 0.45424 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2021-10-20 Multi-stage Multi-stage Trunk Surface Structure
66730 66730 SRR16494153 SRX12697146 SRS10647149 SRP342232 PRJNA772880 Bisphenol S affects zebrafish RNA seq analysis PRJNA772880 Other RNAseq data of 48 hpf zebrafish under bisphenol S     DMSO 3 RNA seq of zebrafish at 48 hpf in DMSO exposed FKRO210105135 1A   isolate:AB type|ecotype:AB type|age:1 year|dev stage:48 hpf|sex:not applicable|tissue:all body|biomaterial provider:ecotoxicology of OUC|ID:replicate=3|BioSampleModel:Model organism or animal                 RNA seq of zebrafish at 48 hpf : DMSO exposed FRAS210076285 1r FRAS210076285 1r The first cDNA strand was synthesized in the m MulV reverse transcriptase system and then the RNA strand was degraded by RNaseH. The second strand of cDNA was synthesized in the DNA polymerase I system. AMPure XPbeads were used to screen the cDNA from 370 bp to 420 bp. PCR amplification was performed and PCR products were purified again with AMPure XP Beads to obtain the library.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   SRP342232     DMSO_3_1.fq.gz DMSO_3_2.fq.gz fastq fastq 6977113200.0 23257044.0 DMSO 3 1.fq.gz 0:150 1:150 A:1886115659;C:1619020544;G:1612888187;T:1858808303;N:280507 150 150     1886115659 1619020544 1612888187 1858808303 280507 SRX12697146 SRS10647149 SRA1313827 Ocean University of China|College of Marine Life Sciences Ocean University of China 2 0.94817 0.94818 0.10571 0.10532 0.67957 0.6802 0.46251 0.46156 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2021-10-20 Multi-stage Multi-stage Trunk Surface Structure
66731 66731 SRR16494154 SRX12697145 SRS10647148 SRP342232 PRJNA772880 Bisphenol S affects zebrafish RNA seq analysis PRJNA772880 Other RNAseq data of 48 hpf zebrafish under bisphenol S     DMSO 2 RNA seq of zebrafish at 48 hpf in DMSO exposed FKRO210105134 1A   isolate:AB type|ecotype:AB type|age:1 year|dev stage:48 hpf|sex:not applicable|tissue:all body|biomaterial provider:ecotoxicology of OUC|ID:replicate=2|BioSampleModel:Model organism or animal                 RNA seq of zebrafish at 48 hpf : DMSO exposed FRAS210076284 1r FRAS210076284 1r The first cDNA strand was synthesized in the m MulV reverse transcriptase system and then the RNA strand was degraded by RNaseH. The second strand of cDNA was synthesized in the DNA polymerase I system. AMPure XPbeads were used to screen the cDNA from 370 bp to 420 bp. PCR amplification was performed and PCR products were purified again with AMPure XP Beads to obtain the library.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   SRP342232     DMSO_2_1.fq.gz DMSO_2_2.fq.gz fastq fastq 6084760800.0 20282536.0 DMSO 2 1.fq.gz 0:150 1:150 A:1662685386;C:1398235089;G:1387347206;T:1636254391;N:238728 150 150     1662685386 1398235089 1387347206 1636254391 238728 SRX12697145 SRS10647148 SRA1313827 Ocean University of China|College of Marine Life Sciences Ocean University of China 2 0.94513 0.94552 0.12007 0.12016 0.67732 0.67698 0.46577 0.46663 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2021-10-20 Multi-stage Multi-stage Trunk Surface Structure
66732 66732 SRR16494155 SRX12697144 SRS10647147 SRP342232 PRJNA772880 Bisphenol S affects zebrafish RNA seq analysis PRJNA772880 Other RNAseq data of 48 hpf zebrafish under bisphenol S     DMSO 1 RNA seq of zebrafish at 48 hpf in DMSO exposed FKRO210105133 1A   isolate:AB type|ecotype:AB type|age:1 year|dev stage:48 hpf|sex:not applicable|tissue:all body|biomaterial provider:ecotoxicology of OUC|ID:replicate=1|BioSampleModel:Model organism or animal                 RNA seq of zebrafish at 48 hpf : DMSO exposed FRAS210076283 1r FRAS210076283 1r The first cDNA strand was synthesized in the m MulV reverse transcriptase system and then the RNA strand was degraded by RNaseH. The second strand of cDNA was synthesized in the DNA polymerase I system. AMPure XPbeads were used to screen the cDNA from 370 bp to 420 bp. PCR amplification was performed and PCR products were purified again with AMPure XP Beads to obtain the library.     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina NovaSeq 6000   SRP342232     DMSO_1_1.fq.gz DMSO_1_2.fq.gz fastq fastq 7313502000.0 24378340.0 DMSO 1 1.fq.gz 0:150 1:150 A:1980180330;C:1695610385;G:1686058673;T:1951359106;N:293506 150 150     1980180330 1695610385 1686058673 1951359106 293506 SRX12697144 SRS10647147 SRA1313827 Ocean University of China|College of Marine Life Sciences Ocean University of China 2 0.94872 0.94801 0.10719 0.10597 0.68221 0.68162 0.47058 0.46764 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2021-10-20 Multi-stage Multi-stage Trunk Surface Structure
67576 67576 SRR17224787 SRX13404154 SRS11307153 SRP350669 PRJNA788440 Danio rerio Raw sequence reads PRJNA788440 Whole Genome Sequencing Danio rerio Raw sequence reads of eyes and skin         zebrafishskin   breed:AB|age:30days|sex:pooled male and female|tissue:skin|BioSampleModel:Model organism or animal                 RNAseq of zebrafish skin mut 3 30dpf skin mut 3 30dpf RNAseq of skin     RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina NovaSeq 6000   SRP350669     skin-mut_3_30dpf.R1.fq.gz skin-mut_3_30dpf.R2.fq.gz fastq fastq 8025414600.0 26751382.0 skin mut 3 30dpf.R1.fq.gz 0:150 1:150 A:1973620738;C:1947874868;G:2125741877;T:1978157854;N:19263 150 150     1973620738 1947874868 2125741877 1978157854 19263 SRX13404154 SRS11307153 SRA1343194 Huazhong Agricultural University|College of Fisheries Huazhong Agricultural University 2 0.92241 0.9178 0.03287 0.03164 0.74951 0.75258 0.53912 0.5384 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2021-12-14 Juvenile Juvenile Skin Surface Structure
67577 67577 SRR17224788 SRX13404153 SRS11307153 SRP350669 PRJNA788440 Danio rerio Raw sequence reads PRJNA788440 Whole Genome Sequencing Danio rerio Raw sequence reads of eyes and skin         zebrafishskin   breed:AB|age:30days|sex:pooled male and female|tissue:skin|BioSampleModel:Model organism or animal                 RNAseq of zebrafish skin mut 2 30dpf skin mut 2 30dpf RNAseq of skin     RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina NovaSeq 6000   SRP350669     skin-mut_2_30dpf.R1.fq.gz skin-mut_2_30dpf.R2.fq.gz fastq fastq 6098938800.0 20329796.0 skin mut 2 30dpf.R1.fq.gz 0:150 1:150 A:1520021563;C:1474526796;G:1582813467;T:1521562690;N:14284 150 150     1520021563 1474526796 1582813467 1521562690 14284 SRX13404153 SRS11307153 SRA1343194 Huazhong Agricultural University|College of Fisheries Huazhong Agricultural University 2 0.92872 0.92431 0.0312 0.02974 0.75426 0.7567 0.50003 0.50362 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2021-12-14 Juvenile Juvenile Skin Surface Structure
67578 67578 SRR17224789 SRX13404152 SRS11307153 SRP350669 PRJNA788440 Danio rerio Raw sequence reads PRJNA788440 Whole Genome Sequencing Danio rerio Raw sequence reads of eyes and skin         zebrafishskin   breed:AB|age:30days|sex:pooled male and female|tissue:skin|BioSampleModel:Model organism or animal                 RNAseq of zebrafish skin mut 1 30dpf skin mut 1 30dpf RNAseq of skin     RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina NovaSeq 6000   SRP350669     skin-mut_1_30dpf.R1.fq.gz skin-mut_1_30dpf.R2.fq.gz fastq fastq 5827766700.0 19425889.0 skin mut 1 30dpf.R1.fq.gz 0:150 1:150 A:1447618390;C:1412402925;G:1523986527;T:1443745018;N:13840 150 150     1447618390 1412402925 1523986527 1443745018 13840 SRX13404152 SRS11307153 SRA1343194 Huazhong Agricultural University|College of Fisheries Huazhong Agricultural University 2 0.93283 0.92736 0.02677 0.02568 0.77477 0.77731 0.45528 0.53231 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2021-12-14 Juvenile Juvenile Skin Surface Structure
67579 67579 SRR17224790 SRX13404151 SRS11307153 SRP350669 PRJNA788440 Danio rerio Raw sequence reads PRJNA788440 Whole Genome Sequencing Danio rerio Raw sequence reads of eyes and skin         zebrafishskin   breed:AB|age:30days|sex:pooled male and female|tissue:skin|BioSampleModel:Model organism or animal                 RNAseq of zebrafish skin wt 3 30dpf skin wt 3 30dpf RNAseq of skin     RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina NovaSeq 6000   SRP350669     skin-wt_3_30dpf.R1.fq.gz skin-wt_3_30dpf.R2.fq.gz fastq fastq 7180880434.0 25043295.0 skin wt 3 30dpf.R1.fq.gz 0:143.99 1:142.74 A:1774318367;C:1783613777;G:1819466761;T:1803467054;N:14475 143 142     1774318367 1783613777 1819466761 1803467054 14475 SRX13404151 SRS11307153 SRA1343194 Huazhong Agricultural University|College of Fisheries Huazhong Agricultural University 2 0.95299 0.94655 0.0347 0.03421 0.74426 0.74649 0.55044 0.54733 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2021-12-14 Juvenile Juvenile Skin Surface Structure
67582 67582 SRR17224793 SRX13404148 SRS11307153 SRP350669 PRJNA788440 Danio rerio Raw sequence reads PRJNA788440 Whole Genome Sequencing Danio rerio Raw sequence reads of eyes and skin         zebrafishskin   breed:AB|age:30days|sex:pooled male and female|tissue:skin|BioSampleModel:Model organism or animal                 RNAseq of zebrafish skin wt 2 30dpf skin wt 2 30dpf RNAseq of skin     RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina NovaSeq 6000   SRP350669     skin-wt_2_30dpf.R1.fq.gz skin-wt_2_30dpf.R2.fq.gz fastq fastq 5568886770.0 19196789.0 skin wt 2 30dpf.R1.fq.gz 0:145.60 1:144.50 A:1392028598;C:1367410036;G:1394084093;T:1415353000;N:11043 145 144     1392028598 1367410036 1394084093 1415353000 11043 SRX13404148 SRS11307153 SRA1343194 Huazhong Agricultural University|College of Fisheries Huazhong Agricultural University 2 0.95518 0.94706 0.03299 0.0324 0.75124 0.75294 0.50897 0.50693 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2021-12-14 Juvenile Juvenile Skin Surface Structure
67583 67583 SRR17224794 SRX13404147 SRS11307153 SRP350669 PRJNA788440 Danio rerio Raw sequence reads PRJNA788440 Whole Genome Sequencing Danio rerio Raw sequence reads of eyes and skin         zebrafishskin   breed:AB|age:30days|sex:pooled male and female|tissue:skin|BioSampleModel:Model organism or animal                 RNAseq of zebrafish skin wt 1 30dpf skin wt 1 30dpf RNAseq of skin     RNA-Seq TRANSCRIPTOMIC Oligo-dT SINGLE ILLUMINA Illumina NovaSeq 6000   SRP350669     skin-wt_1_30dpf.R1.fq.gz skin-wt_1_30dpf.R2.fq.gz fastq fastq 5296036598.0 18327020.0 skin wt 1 30dpf.R1.fq.gz 0:145.04 1:143.94 A:1317620766;C:1308908827;G:1332788335;T:1336708189;N:10481 145 143     1317620766 1308908827 1332788335 1336708189 10481 SRX13404147 SRS11307153 SRA1343194 Huazhong Agricultural University|College of Fisheries Huazhong Agricultural University 2 0.95731 0.94905 0.02784 0.02784 0.77222 0.7738 0.52941 0.58327 150 150 B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2021-12-14 Juvenile Juvenile Skin Surface Structure
67672 67672 SRR17247005 SRX13426046 SRS11327039 SRP351072 PRJNA789095 Danio rerio Raw sequence reads PRJNA789095 Whole Genome Sequencing normal of RNA seq of danio rerio         D2   isolate:not collected|age:3mpf|sex:pooled male and female|tissue:scaly skin|replicate:replicate=biological replicate D2|BioSampleModel:Model organism or animal                 RNAseq of danio rerio S342 S342 normal RNA seq of danio rerio     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP351072     d2_R1.fq.gz d2_R2.fq.gz fastq fastq 6774255900.0 22580853.0 d2 R1.fq.gz 0:150 1:150 A:1901164418;C:1468805326;G:1485945297;T:1918188680;N:152179 150 150     1901164418 1468805326 1485945297 1918188680 152179 SRX13426046 SRS11327039 SRA1344321 shanghai ocean university|college of marine sciences shanghai ocean university 2 0.94179 0.94443 0.0891 0.08968 0.7331 0.73513 0.62221 0.62339 150 150 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   China 2021-12-16 Adult Adult Skin Surface Structure
67673 67673 SRR17247006 SRX13426045 SRS11327038 SRP351072 PRJNA789095 Danio rerio Raw sequence reads PRJNA789095 Whole Genome Sequencing normal of RNA seq of danio rerio         D1   isolate:not collected|age:3mpf|sex:pooled male and female|tissue:scaly skin|replicate:replicate=biological replicate D1|BioSampleModel:Model organism or animal                 RNAseq of danio rerio S341 S341 normal RNA seq of danio rerio     RNA-Seq TRANSCRIPTOMIC Oligo-dT PAIRED ILLUMINA Illumina HiSeq 4000   SRP351072     d1_R1.fq.gz d1_R2.fq.gz fastq fastq 5804251200.0 19347504.0 d1 R1.fq.gz 0:150 1:150 A:1651195300;C:1234370632;G:1251804070;T:1666750262;N:130936 150 150     1651195300 1234370632 1251804070 1666750262 130936 SRX13426045 SRS11327038 SRA1344321 shanghai ocean university|college of marine sciences shanghai ocean university 2 0.83287 0.83611 0.08737 0.08841 0.7498 0.75162 0.64045 0.66425 150 150 B B biological fallback assumption illumina hiseq_era unknown poly_a unknown bulk unknown unknown   China 2021-12-16 Adult Adult Skin Surface Structure

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CREATE TABLE run_metadata("run.accession" VARCHAR, "experiment.accession" VARCHAR, "sample.accession" VARCHAR, "study.accession" VARCHAR, bioproject VARCHAR, "study.title" VARCHAR, "study.alias" VARCHAR, "study.type" VARCHAR, "study.abstract" VARCHAR, "study.attributes" VARCHAR, "study.PMIDs" VARCHAR, "sample.description" VARCHAR, "sample.title" VARCHAR, "sample.alias" VARCHAR, "sample.centername" VARCHAR, "sample.attributes" VARCHAR, "GEOsample.title" VARCHAR, "GEOsample.dataprocessing" VARCHAR, "GEOsample.source" VARCHAR, "GEOsample.treatmentprotocol" VARCHAR, "GEOsample.extractprotocol" VARCHAR, "GEOsample.growthprotocol" VARCHAR, "GEOsample.characteristics" VARCHAR, "GEOsample.accession" VARCHAR, "experiment.title" VARCHAR, "experiment.alias" VARCHAR, "experiment.library_name" VARCHAR, "experiment.design_description" VARCHAR, "experiment.library_construction_protocol" VARCHAR, "experiment.attributes" VARCHAR, "experiment.library_strategy" VARCHAR, "experiment.library_source" VARCHAR, "experiment.library_selection" VARCHAR, "experiment.library_layout" VARCHAR, "experiment.platform" VARCHAR, "experiment.instrument_model" VARCHAR, "experiment.spot_descriptor" VARCHAR, "experiment.study_ref" VARCHAR, "run.title" VARCHAR, "run.attributes" VARCHAR, "run.filename" VARCHAR, "run.semantic_name" VARCHAR, "run.total_bases" DOUBLE, "run.total_spots" DOUBLE, "run.alias" VARCHAR, "run.read_lengths" VARCHAR, "run.base_counts" VARCHAR, "run.r1_length" BIGINT, "run.r2_length" BIGINT, "run.r3_length" BIGINT, "run.r4_length" BIGINT, "run.Acount" BIGINT, "run.Ccount" BIGINT, "run.Gcount" BIGINT, "run.Tcount" BIGINT, "run.Ncount" BIGINT, "run.experiment" VARCHAR, "run.pool_member" VARCHAR, "submission.accession" VARCHAR, "submission.srasource" VARCHAR, "submission.bioprojectsource" VARCHAR, "seqdetective.n_mates" BIGINT, "seqdetective.mapping_rate.mate1" DOUBLE, "seqdetective.mapping_rate.mate2" DOUBLE, "seqdetective.nofeature_rate.mate1" DOUBLE, "seqdetective.nofeature_rate.mate2" DOUBLE, "seqdetective.sparsity.mate1" DOUBLE, "seqdetective.sparsity.mate2" DOUBLE, "seqdetective.pos_strand_rate.mate1" DOUBLE, "seqdetective.pos_strand_rate.mate2" DOUBLE, "seqdetective.readlen.mate1" BIGINT, "seqdetective.readlen.mate2" BIGINT, "seqdetective.judgement.mate1" VARCHAR, "seqdetective.judgement.mate2" VARCHAR, "seqdetective.judgement.reason" VARCHAR, platform_family VARCHAR, instrument_generation VARCHAR, read_bias VARCHAR, selection_class VARCHAR, prep_kit VARCHAR, sc_or_bulk VARCHAR, tech_class VARCHAR, technology VARCHAR, tech_variant VARCHAR, "submission.bioprojectsource.country" VARCHAR, earliest_date DATE, devstage_curation VARCHAR, devstage_curation_coarse VARCHAR, tissue_curation VARCHAR, tissue_curation_coarse VARCHAR);;
CREATE INDEX idx_run_bioproject ON run_metadata(bioproject);;
CREATE INDEX idx_run_run_accession ON run_metadata("run.accession");;