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run_metadata

55 rows where experiment.library_selection = "RT-PCR", experiment.library_strategy = "RNA-Seq" and tissue_curation = "Gonad"

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devstage_curation_coarse 2

devstage_curation 2

tissue_curation_coarse 1

tissue_curation 1

  • Gonad · 55 ✖

technology 1

experiment.platform 1

experiment.library_strategy 1

  • RNA-Seq · 55 ✖

experiment.library_source 1

experiment.library_selection 1

  • RT-PCR · 55 ✖

experiment.library_layout 1

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
33916 33916 SRR30920839 SRX26323786 SRS22850830 SRP537366 PRJNA1169999 Danio rerio Raw sequence reads PRJNA1169999 Other Transcriptional analysis of zebrafish         PF iv 1   strain:not collecte|age:3 mpf|collection date:2023 06|geo loc name:China|sex:female|tissue:ovary|replicate:biological replicate 1|BioSampleModel:Model organism or animal                 PF iv 1 PF iv 1 PF iv 1 the primary follicles of zebrafish     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina HiSeq 2000   SRP537366     PF_iv_1_1.fq.gz PF_iv_1_2.fq.gz fastq fastq 7070670900.0 23568903.0 PF iv 1 1.fq.gz 0:150 1:150 A:1943964885;C:1626486936;G:1603332965;T:1896802175;N:83939 150 150     1943964885 1626486936 1603332965 1896802175 83939 SRX26323786 SRS22850830 SRA1988616 Hunan Normal University|School of Life Sciences Hunan Normal University                       B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   China 2024-10-09 Adult Adult Gonad Reproductive System
33917 33917 SRR30920840 SRX26323785 SRS22850828 SRP537366 PRJNA1169999 Danio rerio Raw sequence reads PRJNA1169999 Other Transcriptional analysis of zebrafish         PF iii 3   strain:not collecte|age:3 mpf|collection date:2023 06|geo loc name:China|sex:female|tissue:ovary|replicate:biological replicate 3|BioSampleModel:Model organism or animal                 PF iii 3 PF iii 3 PF iii 3 the primary follicles of zebrafish     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina HiSeq 2000   SRP537366     PF_iii_3_1.fq.gz PF_iii_3_2.fq.gz fastq fastq 6934323600.0 23114412.0 PF iii 3 1.fq.gz 0:150 1:150 A:1813397404;C:1659011482;G:1680744429;T:1781143700;N:26585 150 150     1813397404 1659011482 1680744429 1781143700 26585 SRX26323785 SRS22850828 SRA1988616 Hunan Normal University|School of Life Sciences Hunan Normal University                       B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   China 2024-10-09 Adult Adult Gonad Reproductive System
33918 33918 SRR30920841 SRX26323784 SRS22850835 SRP537366 PRJNA1169999 Danio rerio Raw sequence reads PRJNA1169999 Other Transcriptional analysis of zebrafish         PF iii 2   strain:not collecte|age:3 mpf|collection date:2023 06|geo loc name:China|sex:female|tissue:ovary|replicate:biological replicate 2|BioSampleModel:Model organism or animal                 PF iii 2 PF iii 2 PF iii 2 the primary follicles of zebrafish     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina HiSeq 2000   SRP537366     PF_iii_2_1.fq.gz PF_iii_2_2.fq.gz fastq fastq 7255113000.0 24183710.0 PF iii 2 1.fq.gz 0:150 1:150 A:1877711956;C:1751268862;G:1779105498;T:1846998314;N:28370 150 150     1877711956 1751268862 1779105498 1846998314 28370 SRX26323784 SRS22850835 SRA1988616 Hunan Normal University|School of Life Sciences Hunan Normal University                       B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   China 2024-10-09 Adult Adult Gonad Reproductive System
33919 33919 SRR30920842 SRX26323783 SRS22850829 SRP537366 PRJNA1169999 Danio rerio Raw sequence reads PRJNA1169999 Other Transcriptional analysis of zebrafish         PF iii 1   strain:not collecte|age:3 mpf|collection date:2023 06|geo loc name:China|sex:female|tissue:ovary|replicate:biological replicate 1|BioSampleModel:Model organism or animal                 PF iii 1 PF iii 1 PF iii 1 the primary follicles of zebrafish     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina HiSeq 2000   SRP537366     PF_iii_1_1.fq.gz PF_iii_1_2.fq.gz fastq fastq 7367112000.0 24557040.0 PF iii 1 1.fq.gz 0:150 1:150 A:1943591568;C:1745588879;G:1774109048;T:1903793252;N:29253 150 150     1943591568 1745588879 1774109048 1903793252 29253 SRX26323783 SRS22850829 SRA1988616 Hunan Normal University|School of Life Sciences Hunan Normal University                       B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   China 2024-10-09 Adult Adult Gonad Reproductive System
33920 33920 SRR30920843 SRX26323782 SRS22850827 SRP537366 PRJNA1169999 Danio rerio Raw sequence reads PRJNA1169999 Other Transcriptional analysis of zebrafish         PF ii 3   strain:not collecte|age:3 mpf|collection date:2023 06|geo loc name:China:Changsha|sex:female|tissue:ovary|replicate:biological replicate 3|BioSampleModel:Model organism or animal                 PF ii 3 PF ii 3 PF ii 3 the primary follicles of zebrafish     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina HiSeq 2000   SRP537366     PF_ii_3_1.fq.gz PF_ii_3_2.fq.gz fastq fastq 7076391300.0 23587971.0 PF ii 3 1.fq.gz 0:150 1:150 A:1894076667;C:1654017021;G:1661713202;T:1866530077;N:54333 150 150     1894076667 1654017021 1661713202 1866530077 54333 SRX26323782 SRS22850827 SRA1988616 Hunan Normal University|School of Life Sciences Hunan Normal University                       B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   China 2024-10-09 Adult Adult Gonad Reproductive System
33921 33921 SRR30920844 SRX26323781 SRS22850824 SRP537366 PRJNA1169999 Danio rerio Raw sequence reads PRJNA1169999 Other Transcriptional analysis of zebrafish         PF ii 2   strain:not collecte|age:3 mpf|collection date:2023 06|geo loc name:China:Changsha|sex:female|tissue:ovary|replicate:biological replicate 2|BioSampleModel:Model organism or animal                 PF ii 2 PF ii 2 PF ii 2 the primary follicles of zebrafish     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina HiSeq 2000   SRP537366     PF_ii_2_1.fq.gz PF_ii_2_2.fq.gz fastq fastq 7019128200.0 23397094.0 PF ii 2 1.fq.gz 0:150 1:150 A:1864708472;C:1652262592;G:1662746794;T:1839356863;N:53479 150 150     1864708472 1652262592 1662746794 1839356863 53479 SRX26323781 SRS22850824 SRA1988616 Hunan Normal University|School of Life Sciences Hunan Normal University                       B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   China 2024-10-09 Adult Adult Gonad Reproductive System
33922 33922 SRR30920845 SRX26323780 SRS22850826 SRP537366 PRJNA1169999 Danio rerio Raw sequence reads PRJNA1169999 Other Transcriptional analysis of zebrafish         PF ii 1   strain:not collecte|age:3 mpf|collection date:2023 06|geo loc name:China:Changsha|sex:female|tissue:ovary|replicate:biological replicate 1|BioSampleModel:Model organism or animal                 PF ii 1 PF ii 1 PF ii 1 the primary follicles of zebrafish     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina HiSeq 2000   SRP537366     PF_ii_1_1.fq.gz PF_ii_1_2.fq.gz fastq fastq 8013867900.0 26712893.0 PF ii 1 1.fq.gz 0:150 1:150 A:2115645121;C:1898389790;G:1909480370;T:2090291064;N:61555 150 150     2115645121 1898389790 1909480370 2090291064 61555 SRX26323780 SRS22850826 SRA1988616 Hunan Normal University|School of Life Sciences Hunan Normal University                       B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   China 2024-10-09 Adult Adult Gonad Reproductive System
33923 33923 SRR30920846 SRX26323779 SRS22850825 SRP537366 PRJNA1169999 Danio rerio Raw sequence reads PRJNA1169999 Other Transcriptional analysis of zebrafish         PF i 3   strain:not collecte|age:3 mpf|collection date:2023 06|geo loc name:China|sex:female|tissue:ovary|replicate:biological replicate 3|BioSampleModel:Model organism or animal                 PF i 3 PF i 3 PF i 3 the primary follicles of zebrafish     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina HiSeq 2000   SRP537366     PF_i_3_1.fq.gz PF_i_3_2.fq.gz fastq fastq 8319390000.0 27731300.0 PF i 3 1.fq.gz 0:150 1:150 A:2161188519;C:1997121516;G:2035390212;T:2125657588;N:32165 150 150     2161188519 1997121516 2035390212 2125657588 32165 SRX26323779 SRS22850825 SRA1988616 Hunan Normal University|School of Life Sciences Hunan Normal University                       B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   China 2024-10-09 Adult Adult Gonad Reproductive System
33924 33924 SRR30920847 SRX26323778 SRS22850823 SRP537366 PRJNA1169999 Danio rerio Raw sequence reads PRJNA1169999 Other Transcriptional analysis of zebrafish         PF iv 3   strain:not collecte|age:3 mpf|collection date:2023 06|geo loc name:China|sex:female|tissue:ovary|replicate:biological replicate 3|BioSampleModel:Model organism or animal                 PF iv 3 PF iv 3 PF iv 3 the primary follicles of zebrafish     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina HiSeq 2000   SRP537366     PF_iv_3_1.fq.gz PF_iv_3_2.fq.gz fastq fastq 7173257700.0 23910859.0 PF iv 3 1.fq.gz 0:150 1:150 A:1875724697;C:1713434205;G:1745363776;T:1838706880;N:28142 150 150     1875724697 1713434205 1745363776 1838706880 28142 SRX26323778 SRS22850823 SRA1988616 Hunan Normal University|School of Life Sciences Hunan Normal University                       B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   China 2024-10-09 Adult Adult Gonad Reproductive System
33925 33925 SRR30920848 SRX26323777 SRS22850821 SRP537366 PRJNA1169999 Danio rerio Raw sequence reads PRJNA1169999 Other Transcriptional analysis of zebrafish         PF iv 2   strain:not collecte|age:3 mpf|collection date:2023 06|geo loc name:China|sex:female|tissue:ovary|replicate:biological replicate 2|BioSampleModel:Model organism or animal                 PF iv 2 PF iv 2 PF iv 2 the primary follicles of zebrafish     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina HiSeq 2000   SRP537366     PF_iv_2_1.fq.gz PF_iv_2_2.fq.gz fastq fastq 7161631500.0 23872105.0 PF iv 2 1.fq.gz 0:150 1:150 A:1890379638;C:1697508923;G:1718050265;T:1855664701;N:27973 150 150     1890379638 1697508923 1718050265 1855664701 27973 SRX26323777 SRS22850821 SRA1988616 Hunan Normal University|School of Life Sciences Hunan Normal University                       B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   China 2024-10-09 Adult Adult Gonad Reproductive System
33926 33926 SRR30920849 SRX26323776 SRS22850822 SRP537366 PRJNA1169999 Danio rerio Raw sequence reads PRJNA1169999 Other Transcriptional analysis of zebrafish         PF i 2   strain:not collecte|age:3 mpf|collection date:2023 06|geo loc name:China|sex:female|tissue:ovary|replicate:biological replicate 2|BioSampleModel:Model organism or animal                 PF i 2 PF i 2 PF i 2 the primary follicles of zebrafish     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina HiSeq 2000   SRP537366     PF_i_2_1.fq.gz PF_i_2_2.fq.gz fastq fastq 7036742700.0 23455809.0 PF i 2 1.fq.gz 0:150 1:150 A:1861224200;C:1662236616;G:1671149144;T:1842079812;N:52928 150 150     1861224200 1662236616 1671149144 1842079812 52928 SRX26323776 SRS22850822 SRA1988616 Hunan Normal University|School of Life Sciences Hunan Normal University                       B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   China 2024-10-09 Adult Adult Gonad Reproductive System
33927 33927 SRR30920850 SRX26323775 SRS22850820 SRP537366 PRJNA1169999 Danio rerio Raw sequence reads PRJNA1169999 Other Transcriptional analysis of zebrafish         PF i 1   strain:not collecte|age:3 mpf|collection date:2023 06|geo loc name:China|sex:female|tissue:ovary|replicate:biological replicate 1|BioSampleModel:Model organism or animal                 PF i 1 PF i 1 PF i 1 the primary follicles of zebrafish     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina HiSeq 2000   SRP537366     PF_i_1_1.fq.gz PF_i_1_2.fq.gz fastq fastq 6977957400.0 23259858.0 PF i 1 1.fq.gz 0:150 1:150 A:1821299728;C:1674791787;G:1691820873;T:1790017865;N:27147 150 150     1821299728 1674791787 1691820873 1790017865 27147 SRX26323775 SRS22850820 SRA1988616 Hunan Normal University|School of Life Sciences Hunan Normal University                       B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   China 2024-10-09 Adult Adult Gonad Reproductive System
34128 34128 SRR31371655 SRX26745254 SRS23234144 SRP545712 PRJNA1186363 Danio rerio Transcriptome or Gene expression PRJNA1186363 Other Gonad tissue of juvenile zebrafish post long term treatment with nano copper or melatonin       Model organism or animal sample from zebrafish zebra001   cultivar:zebrafish|age:40dpf|collection date:2024 11 15|geo loc name:China|sex:female|tissue:Freshwater Fisheries Research Center of ChineseAcademy of Fishery Sciences|zebrafish:Gonadal development|BioSampleModel:Model organism or animal                 RNA seq from the gonad of Zebrafish PC3 R1.fq PC3 R1.fq CuNPs and melatonin treatment     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP545712     PC3_R1.fq.gz PC3_R2.fq.gz fastq fastq 8050557450.0 26657475.0 PC3 R1.fq.gz                       SRX26745254 SRS23234144 SRA2016483 Chinese Academy of Fishery Science|Freshwater Fishery Research Center Chinese Academy of Fishery Science                       B B biological fallback assumption illumina novaseq_era unknown other unknown bulk unknown unknown   China 2024-11-17 Juvenile Juvenile Gonad Reproductive System
34129 34129 SRR31371656 SRX26745253 SRS23234144 SRP545712 PRJNA1186363 Danio rerio Transcriptome or Gene expression PRJNA1186363 Other Gonad tissue of juvenile zebrafish post long term treatment with nano copper or melatonin       Model organism or animal sample from zebrafish zebra001   cultivar:zebrafish|age:40dpf|collection date:2024 11 15|geo loc name:China|sex:female|tissue:Freshwater Fisheries Research Center of ChineseAcademy of Fishery Sciences|zebrafish:Gonadal development|BioSampleModel:Model organism or animal                 RNA seq from the gonad of Zebrafish PC2 R1.fq PC2 R1.fq CuNPs and melatonin treatment     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP545712     PC2_R1.fq.gz PC2_R2.fq.gz fastq fastq 7072903722.0 23420211.0 PC2 R1.fq.gz 0:151 1:151 A:1848366962;C:1685927772;G:1702568524;T:1835518466;N:521998 151 151     1848366962 1685927772 1702568524 1835518466 521998 SRX26745253 SRS23234144 SRA2016483 Chinese Academy of Fishery Science|Freshwater Fishery Research Center Chinese Academy of Fishery Science                       B B biological fallback assumption illumina novaseq_era unknown other unknown bulk unknown unknown   China 2024-11-17 Juvenile Juvenile Gonad Reproductive System
34130 34130 SRR31371657 SRX26745252 SRS23234144 SRP545712 PRJNA1186363 Danio rerio Transcriptome or Gene expression PRJNA1186363 Other Gonad tissue of juvenile zebrafish post long term treatment with nano copper or melatonin       Model organism or animal sample from zebrafish zebra001   cultivar:zebrafish|age:40dpf|collection date:2024 11 15|geo loc name:China|sex:female|tissue:Freshwater Fisheries Research Center of ChineseAcademy of Fishery Sciences|zebrafish:Gonadal development|BioSampleModel:Model organism or animal                 RNA seq from the gonad of Zebrafish PC1 R1.fq PC1 R1.fq CuNPs and melatonin treatment     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP545712     PC1_R1.fq.gz PC1_R2.fq.gz fastq fastq 9551575668.0 31627734.0 PC1 R1.fq.gz                       SRX26745252 SRS23234144 SRA2016483 Chinese Academy of Fishery Science|Freshwater Fishery Research Center Chinese Academy of Fishery Science                       B B biological fallback assumption illumina novaseq_era unknown other unknown bulk unknown unknown   China 2024-11-17 Juvenile Juvenile Gonad Reproductive System
34131 34131 SRR31371658 SRX26745251 SRS23234144 SRP545712 PRJNA1186363 Danio rerio Transcriptome or Gene expression PRJNA1186363 Other Gonad tissue of juvenile zebrafish post long term treatment with nano copper or melatonin       Model organism or animal sample from zebrafish zebra001   cultivar:zebrafish|age:40dpf|collection date:2024 11 15|geo loc name:China|sex:female|tissue:Freshwater Fisheries Research Center of ChineseAcademy of Fishery Sciences|zebrafish:Gonadal development|BioSampleModel:Model organism or animal                 RNA seq from the gonad of Zebrafish PB3 R1.fq PB3 R1.fq CuNPs treatment     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP545712     PB3_R1.fq.gz PB3_R2.fq.gz fastq fastq 6839092000.0 22646000.0 PB3 R1.fq.gz                       SRX26745251 SRS23234144 SRA2016483 Chinese Academy of Fishery Science|Freshwater Fishery Research Center Chinese Academy of Fishery Science                       B B biological fallback assumption illumina novaseq_era unknown other unknown bulk unknown unknown   China 2024-11-17 Juvenile Juvenile Gonad Reproductive System
34132 34132 SRR31371659 SRX26745250 SRS23234144 SRP545712 PRJNA1186363 Danio rerio Transcriptome or Gene expression PRJNA1186363 Other Gonad tissue of juvenile zebrafish post long term treatment with nano copper or melatonin       Model organism or animal sample from zebrafish zebra001   cultivar:zebrafish|age:40dpf|collection date:2024 11 15|geo loc name:China|sex:female|tissue:Freshwater Fisheries Research Center of ChineseAcademy of Fishery Sciences|zebrafish:Gonadal development|BioSampleModel:Model organism or animal                 RNA seq from the gonad of Zebrafish PB2 R1.fq PB2 R1.fq CuNPs treatment     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP545712     PB2_R1.fq.gz PB2_R2.fq.gz fastq fastq 7582292558.0 25106929.0 PB2 R1.fq.gz                       SRX26745250 SRS23234144 SRA2016483 Chinese Academy of Fishery Science|Freshwater Fishery Research Center Chinese Academy of Fishery Science                       B B biological fallback assumption illumina novaseq_era unknown other unknown bulk unknown unknown   China 2024-11-17 Juvenile Juvenile Gonad Reproductive System
34133 34133 SRR31371660 SRX26745249 SRS23234144 SRP545712 PRJNA1186363 Danio rerio Transcriptome or Gene expression PRJNA1186363 Other Gonad tissue of juvenile zebrafish post long term treatment with nano copper or melatonin       Model organism or animal sample from zebrafish zebra001   cultivar:zebrafish|age:40dpf|collection date:2024 11 15|geo loc name:China|sex:female|tissue:Freshwater Fisheries Research Center of ChineseAcademy of Fishery Sciences|zebrafish:Gonadal development|BioSampleModel:Model organism or animal                 RNA seq from the gonad of Zebrafish PB1 R1.fq PB1 R1.fq CuNPs treatment     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP545712     PB1_R1.fq.gz PB1_R2.fq.gz fastq fastq 8122972218.0 26897259.0 PB1 R1.fq.gz                       SRX26745249 SRS23234144 SRA2016483 Chinese Academy of Fishery Science|Freshwater Fishery Research Center Chinese Academy of Fishery Science                       B B biological fallback assumption illumina novaseq_era unknown other unknown bulk unknown unknown   China 2024-11-17 Juvenile Juvenile Gonad Reproductive System
34134 34134 SRR31371661 SRX26745248 SRS23234144 SRP545712 PRJNA1186363 Danio rerio Transcriptome or Gene expression PRJNA1186363 Other Gonad tissue of juvenile zebrafish post long term treatment with nano copper or melatonin       Model organism or animal sample from zebrafish zebra001   cultivar:zebrafish|age:40dpf|collection date:2024 11 15|geo loc name:China|sex:female|tissue:Freshwater Fisheries Research Center of ChineseAcademy of Fishery Sciences|zebrafish:Gonadal development|BioSampleModel:Model organism or animal                 RNA seq from the gonad of Zebrafish CA3 R1.fq CA3 R1.fq control     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP545712     CA3_R1.fq.gz CA3_R2.fq.gz fastq fastq 7638136586.0 25291843.0 CA3 R1.fq.gz                       SRX26745248 SRS23234144 SRA2016483 Chinese Academy of Fishery Science|Freshwater Fishery Research Center Chinese Academy of Fishery Science                       B B biological fallback assumption illumina novaseq_era unknown other unknown bulk unknown unknown   China 2024-11-17 Juvenile Juvenile Gonad Reproductive System
34135 34135 SRR31371662 SRX26745247 SRS23234144 SRP545712 PRJNA1186363 Danio rerio Transcriptome or Gene expression PRJNA1186363 Other Gonad tissue of juvenile zebrafish post long term treatment with nano copper or melatonin       Model organism or animal sample from zebrafish zebra001   cultivar:zebrafish|age:40dpf|collection date:2024 11 15|geo loc name:China|sex:female|tissue:Freshwater Fisheries Research Center of ChineseAcademy of Fishery Sciences|zebrafish:Gonadal development|BioSampleModel:Model organism or animal                 RNA seq from the gonad of Zebrafish CA1 R1.fq CA1 R1.fq control     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP545712     CA1_R1.fq.gz CA1_R2.fq.gz fastq fastq 7499744784.0 24833592.0 CA1 R1.fq.gz 0:151 1:151 A:1951636355;C:1801626786;G:1812560367;T:1933366696;N:554580 151 151     1951636355 1801626786 1812560367 1933366696 554580 SRX26745247 SRS23234144 SRA2016483 Chinese Academy of Fishery Science|Freshwater Fishery Research Center Chinese Academy of Fishery Science                       B B biological fallback assumption illumina novaseq_era unknown other unknown bulk unknown unknown   China 2024-11-17 Juvenile Juvenile Gonad Reproductive System
34136 34136 SRR31371663 SRX26745246 SRS23234144 SRP545712 PRJNA1186363 Danio rerio Transcriptome or Gene expression PRJNA1186363 Other Gonad tissue of juvenile zebrafish post long term treatment with nano copper or melatonin       Model organism or animal sample from zebrafish zebra001   cultivar:zebrafish|age:40dpf|collection date:2024 11 15|geo loc name:China|sex:female|tissue:Freshwater Fisheries Research Center of ChineseAcademy of Fishery Sciences|zebrafish:Gonadal development|BioSampleModel:Model organism or animal                 RNA seq from the gonad of Zebrafish CA2 R1.fq CA2 R1.fq control     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP545712     CA2_R1.fq.gz CA2_R2.fq.gz fastq fastq 6253035330.0 20705415.0 CA2 R1.fq.gz                       SRX26745246 SRS23234144 SRA2016483 Chinese Academy of Fishery Science|Freshwater Fishery Research Center Chinese Academy of Fishery Science                       B B biological fallback assumption illumina novaseq_era unknown other unknown bulk unknown unknown   China 2024-11-17 Juvenile Juvenile Gonad Reproductive System
34425 34425 SRR31754963 SRX27116846 SRS23574567 SRP552202 PRJNA1199694 Zebrafish ovarian RNA seq PRJNA1199694 Other Adult female zebrafish ovaries were taken for subsequent analyses.In this study we used RNA seq results to uncover the key pathways involved in ovarian damage caused by single and combined exposure to EPO and AFB1.         ovary AFB2   strain:not collected|isolate:ovary AFB2|breed:bred in tanks|cultivar:not collected|ecotype:wild type AB|age:7 mpf|dev stage:Adult zebrafish|collection date:2023 12 03|geo loc name:China: Zhejiang|sex:female|tissue:ovary|replicate:biological replicate 2|BioSampleModel:Model organism or animal                 transcriptomic sequencing LRA172648 LRA172648 The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP552202     AFB2_R2.fastq.gz AFB2_R1.fastq.gz fastq fastq 8264268656.0 27365128.0 AFB2 R1.fastq.gz 0:151 1:151 A:2181967333;C:1933268479;G:1966876338;T:2182007880;N:148626 151 151     2181967333 1933268479 1966876338 2182007880 148626 SRX27116846 SRS23574567 SRA2036776 shandong university|School of Public Health shandong university                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2024-12-17 Adult Adult Gonad Reproductive System
34426 34426 SRR31754964 SRX27116845 SRS23574566 SRP552202 PRJNA1199694 Zebrafish ovarian RNA seq PRJNA1199694 Other Adult female zebrafish ovaries were taken for subsequent analyses.In this study we used RNA seq results to uncover the key pathways involved in ovarian damage caused by single and combined exposure to EPO and AFB1.         ovary AFB1   strain:not collected|isolate:ovary AFB1|breed:bred in tanks|cultivar:not collected|ecotype:wild type AB|age:7 mpf|dev stage:Adult zebrafish|collection date:2023 12 03|geo loc name:China: Zhejiang|sex:female|tissue:ovary|replicate:biological replicate 1|BioSampleModel:Model organism or animal                 transcriptomic sequencing LRA172647 LRA172647 The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP552202     AFB1_R1.fastq.gz AFB1_R2.fastq.gz fastq fastq 8208094240.0 27179120.0 AFB1 R1.fastq.gz 0:151 1:151 A:2198424448;C:1899278946;G:1926174417;T:2184068899;N:147530 151 151     2198424448 1899278946 1926174417 2184068899 147530 SRX27116845 SRS23574566 SRA2036776 shandong university|School of Public Health shandong university                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2024-12-17 Adult Adult Gonad Reproductive System
34427 34427 SRR31754965 SRX27116844 SRS23574565 SRP552202 PRJNA1199694 Zebrafish ovarian RNA seq PRJNA1199694 Other Adult female zebrafish ovaries were taken for subsequent analyses.In this study we used RNA seq results to uncover the key pathways involved in ovarian damage caused by single and combined exposure to EPO and AFB1.         ovary EPO4   strain:not collected|isolate:ovary EPO4|breed:bred in tanks|cultivar:not collected|ecotype:wild type AB|age:7 mpf|dev stage:Adult zebrafish|collection date:2023 12 03|geo loc name:China: Zhejiang|sex:female|tissue:ovary|replicate:biological replicate 4|BioSampleModel:Model organism or animal                 transcriptomic sequencing LRA172655 LRA172655 The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP552202     EPO4_R1.fastq.gz EPO4_R2.fastq.gz fastq fastq 6421073868.0 21261834.0 EPO4 R1.fastq.gz 0:151 1:151 A:1714628675;C:1485463411;G:1507815048;T:1712492241;N:674493 151 151     1714628675 1485463411 1507815048 1712492241 674493 SRX27116844 SRS23574565 SRA2036776 shandong university|School of Public Health shandong university                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2024-12-17 Adult Adult Gonad Reproductive System
34428 34428 SRR31754966 SRX27116843 SRS23574564 SRP552202 PRJNA1199694 Zebrafish ovarian RNA seq PRJNA1199694 Other Adult female zebrafish ovaries were taken for subsequent analyses.In this study we used RNA seq results to uncover the key pathways involved in ovarian damage caused by single and combined exposure to EPO and AFB1.         ovary EPO3   strain:not collected|isolate:ovary EPO3|breed:bred in tanks|cultivar:not collected|ecotype:wild type AB|age:7 mpf|dev stage:Adult zebrafish|collection date:2023 12 03|geo loc name:China: Zhejiang|sex:female|tissue:ovary|replicate:biological replicate 3|BioSampleModel:Model organism or animal                 transcriptomic sequencing LRA172654 LRA172654 The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP552202     EPO3_R1.fastq.gz EPO3_R2.fastq.gz fastq fastq 12384393350.0 41007925.0 EPO3 R1.fastq.gz 0:151 1:151 A:3299390090;C:2870219776;G:2921073783;T:3292432295;N:1277406 151 151     3299390090 2870219776 2921073783 3292432295 1277406 SRX27116843 SRS23574564 SRA2036776 shandong university|School of Public Health shandong university                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2024-12-18 Adult Adult Gonad Reproductive System
34429 34429 SRR31754967 SRX27116842 SRS23574563 SRP552202 PRJNA1199694 Zebrafish ovarian RNA seq PRJNA1199694 Other Adult female zebrafish ovaries were taken for subsequent analyses.In this study we used RNA seq results to uncover the key pathways involved in ovarian damage caused by single and combined exposure to EPO and AFB1.         ovary EPO2   strain:not collected|isolate:ovary EPO2|breed:bred in tanks|cultivar:not collected|ecotype:wild type AB|age:7 mpf|dev stage:Adult zebrafish|collection date:2023 12 03|geo loc name:China: Zhejiang|sex:female|tissue:ovary|replicate:biological replicate 2|BioSampleModel:Model organism or animal                 transcriptomic sequencing LRA172653 LRA172653 The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP552202     EPO2_R1.fastq.gz EPO2_R2.fastq.gz fastq fastq 7227706204.0 23932802.0 EPO2 R1.fastq.gz 0:151 1:151 A:1914315748;C:1683061506;G:1712969230;T:1916781383;N:578337 151 151     1914315748 1683061506 1712969230 1916781383 578337 SRX27116842 SRS23574563 SRA2036776 shandong university|School of Public Health shandong university                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2024-12-17 Adult Adult Gonad Reproductive System
34430 34430 SRR31754968 SRX27116841 SRS23574562 SRP552202 PRJNA1199694 Zebrafish ovarian RNA seq PRJNA1199694 Other Adult female zebrafish ovaries were taken for subsequent analyses.In this study we used RNA seq results to uncover the key pathways involved in ovarian damage caused by single and combined exposure to EPO and AFB1.         ovary EPO1   strain:not collected|isolate:ovary EPO1|breed:bred in tanks|cultivar:not collected|ecotype:wild type AB|age:7 mpf|dev stage:Adult zebrafish|collection date:2023 12 03|geo loc name:China: Zhejiang|sex:female|tissue:ovary|replicate:biological replicate 1|BioSampleModel:Model organism or animal                 transcriptomic sequencing LRA172652 LRA172652 The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP552202     EPO1_R1.fastq.gz EPO1_R2.fastq.gz fastq fastq 7074519422.0 23425561.0 EPO1 R1.fastq.gz 0:151 1:151 A:1851567042;C:1663164001;G:1696118474;T:1863062969;N:606936 151 151     1851567042 1663164001 1696118474 1863062969 606936 SRX27116841 SRS23574562 SRA2036776 shandong university|School of Public Health shandong university                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2024-12-17 Adult Adult Gonad Reproductive System
34431 34431 SRR31754969 SRX27116840 SRS23574561 SRP552202 PRJNA1199694 Zebrafish ovarian RNA seq PRJNA1199694 Other Adult female zebrafish ovaries were taken for subsequent analyses.In this study we used RNA seq results to uncover the key pathways involved in ovarian damage caused by single and combined exposure to EPO and AFB1.         ovary CK5   strain:not collected|isolate:ovary CK4|breed:bred in tanks|cultivar:not collected|ecotype:wild type AB|age:7 mpf|dev stage:Adult zebrafish|collection date:2023 12 03|geo loc name:China: Zhejiang|sex:female|tissue:ovary|replicate:biological replicate 4|BioSampleModel:Model organism or animal                 transcriptomic sequencing LRA172646 LRA172646 The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP552202     CK5_R1.fastq.gz CK5_R2.fastq.gz fastq fastq 7906135010.0 26179255.0 CK5 R1.fastq.gz 0:151 1:151 A:2103989212;C:1837685916;G:1866984480;T:2097334455;N:140947 151 151     2103989212 1837685916 1866984480 2097334455 140947 SRX27116840 SRS23574561 SRA2036776 shandong university|School of Public Health shandong university                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2024-12-17 Adult Adult Gonad Reproductive System
34432 34432 SRR31754970 SRX27116839 SRS23574560 SRP552202 PRJNA1199694 Zebrafish ovarian RNA seq PRJNA1199694 Other Adult female zebrafish ovaries were taken for subsequent analyses.In this study we used RNA seq results to uncover the key pathways involved in ovarian damage caused by single and combined exposure to EPO and AFB1.         ovary CK4   strain:not collected|isolate:ovary CK3|breed:bred in tanks|cultivar:not collected|ecotype:wild type AB|age:7 mpf|dev stage:Adult zebrafish|collection date:2023 12 03|geo loc name:China: Zhejiang|sex:female|tissue:ovary|replicate:biological replicate 3|BioSampleModel:Model organism or animal                 transcriptomic sequencing LRA172645 LRA172645 The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP552202     CK4_R1.fastq.gz CK4_R2.fastq.gz fastq fastq 8147481934.0 26978417.0 CK4 R1.fastq.gz 0:151 1:151 A:2155683788;C:1900855108;G:1935489119;T:2155309457;N:144462 151 151     2155683788 1900855108 1935489119 2155309457 144462 SRX27116839 SRS23574560 SRA2036776 shandong university|School of Public Health shandong university                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2024-12-18 Adult Adult Gonad Reproductive System
34433 34433 SRR31754971 SRX27116838 SRS23574559 SRP552202 PRJNA1199694 Zebrafish ovarian RNA seq PRJNA1199694 Other Adult female zebrafish ovaries were taken for subsequent analyses.In this study we used RNA seq results to uncover the key pathways involved in ovarian damage caused by single and combined exposure to EPO and AFB1.         ovary COM5   strain:not collected|isolate:ovary COM4|breed:bred in tanks|cultivar:not collected|ecotype:wild type AB|age:7 mpf|dev stage:Adult zebrafish|collection date:2023 12 03|geo loc name:China: Zhejiang|sex:female|tissue:ovary|replicate:biological replicate 4|BioSampleModel:Model organism or animal                 transcriptomic sequencing LRA172661 LRA172661 The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP552202     COM5_R1.fastq.gz COM5_R2.fastq.gz fastq fastq 6513305272.0 21567236.0 COM5 R1.fastq.gz 0:151 1:151 A:1761626217;C:1492342436;G:1510749983;T:1747915094;N:671542 151 151     1761626217 1492342436 1510749983 1747915094 671542 SRX27116838 SRS23574559 SRA2036776 shandong university|School of Public Health shandong university                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2024-12-18 Adult Adult Gonad Reproductive System
34434 34434 SRR31754972 SRX27116837 SRS23574558 SRP552202 PRJNA1199694 Zebrafish ovarian RNA seq PRJNA1199694 Other Adult female zebrafish ovaries were taken for subsequent analyses.In this study we used RNA seq results to uncover the key pathways involved in ovarian damage caused by single and combined exposure to EPO and AFB1.         ovary COM4   strain:not collected|isolate:ovary COM3|breed:bred in tanks|cultivar:not collected|ecotype:wild type AB|age:7 mpf|dev stage:Adult zebrafish|collection date:2023 12 03|geo loc name:China: Zhejiang|sex:female|tissue:ovary|replicate:biological replicate 3|BioSampleModel:Model organism or animal                 transcriptomic sequencing LRA172660 LRA172660 The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP552202     COM4_R1.fastq.gz COM4_R2.fastq.gz fastq fastq 10523636054.0 34846477.0 COM4 R1.fastq.gz 0:151 1:151 A:2816366030;C:2434669480;G:2460731324;T:2810787243;N:1081977 151 151     2816366030 2434669480 2460731324 2810787243 1081977 SRX27116837 SRS23574558 SRA2036776 shandong university|School of Public Health shandong university                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2024-12-18 Adult Adult Gonad Reproductive System
34435 34435 SRR31754973 SRX27116836 SRS23574557 SRP552202 PRJNA1199694 Zebrafish ovarian RNA seq PRJNA1199694 Other Adult female zebrafish ovaries were taken for subsequent analyses.In this study we used RNA seq results to uncover the key pathways involved in ovarian damage caused by single and combined exposure to EPO and AFB1.         ovary COM3   strain:not collected|isolate:ovary COM2|breed:bred in tanks|cultivar:not collected|ecotype:wild type AB|age:7 mpf|dev stage:Adult zebrafish|collection date:2023 12 03|geo loc name:China: Zhejiang|sex:female|tissue:ovary|replicate:biological replicate 2|BioSampleModel:Model organism or animal                 transcriptomic sequencing LRA172659 LRA172659 The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP552202     COM3_R1.fastq.gz COM3_R2.fastq.gz fastq fastq 5957202170.0 19725835.0 COM3 R1.fastq.gz 0:151 1:151 A:1578192296;C:1388274373;G:1405276551;T:1584848422;N:610528 151 151     1578192296 1388274373 1405276551 1584848422 610528 SRX27116836 SRS23574557 SRA2036776 shandong university|School of Public Health shandong university                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2024-12-17 Adult Adult Gonad Reproductive System
34436 34436 SRR31754974 SRX27116835 SRS23574556 SRP552202 PRJNA1199694 Zebrafish ovarian RNA seq PRJNA1199694 Other Adult female zebrafish ovaries were taken for subsequent analyses.In this study we used RNA seq results to uncover the key pathways involved in ovarian damage caused by single and combined exposure to EPO and AFB1.         ovary COM1   strain:not collected|isolate:ovary COM1|breed:bred in tanks|cultivar:not collected|ecotype:wild type AB|age:7 mpf|dev stage:Adult zebrafish|collection date:2023 12 03|geo loc name:China: Zhejiang|sex:female|tissue:ovary|replicate:biological replicate 1|BioSampleModel:Model organism or animal                 transcriptomic sequencing LRA172657 LRA172657 The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP552202     COM1_R1.fastq.gz COM1_R2.fastq.gz fastq fastq 7215727676.0 23893138.0 COM1 R1.fastq.gz 0:151 1:151 A:1914653765;C:1678769921;G:1704180177;T:1917546023;N:577790 151 151     1914653765 1678769921 1704180177 1917546023 577790 SRX27116835 SRS23574556 SRA2036776 shandong university|School of Public Health shandong university                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2024-12-18 Adult Adult Gonad Reproductive System
34437 34437 SRR31754975 SRX27116834 SRS23574555 SRP552202 PRJNA1199694 Zebrafish ovarian RNA seq PRJNA1199694 Other Adult female zebrafish ovaries were taken for subsequent analyses.In this study we used RNA seq results to uncover the key pathways involved in ovarian damage caused by single and combined exposure to EPO and AFB1.         ovary AFB4   strain:not collected|isolate:ovary AFB4|breed:bred in tanks|cultivar:not collected|ecotype:wild type AB|age:7 mpf|dev stage:Adult zebrafish|collection date:2023 12 03|geo loc name:China: Zhejiang|sex:female|tissue:ovary|replicate:biological replicate 4|BioSampleModel:Model organism or animal                 transcriptomic sequencing LRA172650 LRA172650 The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP552202     AFB4_R1.fastq.gz AFB4_R2.fastq.gz fastq fastq 6275308434.0 20779167.0 AFB4 R1.fastq.gz 0:151 1:151 A:1653186447;C:1467741662;G:1493041609;T:1660678204;N:660512 151 151     1653186447 1467741662 1493041609 1660678204 660512 SRX27116834 SRS23574555 SRA2036776 shandong university|School of Public Health shandong university                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2024-12-18 Adult Adult Gonad Reproductive System
34438 34438 SRR31754976 SRX27116833 SRS23574554 SRP552202 PRJNA1199694 Zebrafish ovarian RNA seq PRJNA1199694 Other Adult female zebrafish ovaries were taken for subsequent analyses.In this study we used RNA seq results to uncover the key pathways involved in ovarian damage caused by single and combined exposure to EPO and AFB1.         ovary AFB3   strain:not collected|isolate:ovary AFB3|breed:bred in tanks|cultivar:not collected|ecotype:wild type AB|age:7 mpf|dev stage:Adult zebrafish|collection date:2023 12 03|geo loc name:China: Zhejiang|sex:female|tissue:ovary|replicate:biological replicate 3|BioSampleModel:Model organism or animal                 transcriptomic sequencing LRA172649 LRA172649 The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP552202     AFB3_R1.fastq.gz AFB3_R2.fastq.gz fastq fastq 6935349970.0 22964735.0 AFB3 R1.fastq.gz 0:151 1:151 A:1846423278;C:1610631481;G:1638136488;T:1840027935;N:130788 151 151     1846423278 1610631481 1638136488 1840027935 130788 SRX27116833 SRS23574554 SRA2036776 shandong university|School of Public Health shandong university                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2024-12-18 Adult Adult Gonad Reproductive System
34439 34439 SRR31754977 SRX27116832 SRS23574553 SRP552202 PRJNA1199694 Zebrafish ovarian RNA seq PRJNA1199694 Other Adult female zebrafish ovaries were taken for subsequent analyses.In this study we used RNA seq results to uncover the key pathways involved in ovarian damage caused by single and combined exposure to EPO and AFB1.         ovary CK3   strain:not collected|isolate:ovary CK2|breed:bred in tanks|cultivar:not collected|ecotype:wild type AB|age:7 mpf|dev stage:Adult zebrafish|collection date:2023 12 03|geo loc name:China: Zhejiang|sex:female|tissue:ovary|replicate:biological replicate 2|BioSampleModel:Model organism or animal                 transcriptomic sequencing LRA172644 LRA172644 The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP552202     CK3_R1.fastq.gz CK3_R2.fastq.gz fastq fastq 9516414714.0 31511307.0 CK3 R1.fastq.gz 0:151 1:151 A:2552809373;C:2199179689;G:2229773357;T:2534472563;N:179732 151 151     2552809373 2199179689 2229773357 2534472563 179732 SRX27116832 SRS23574553 SRA2036776 shandong university|School of Public Health shandong university                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2024-12-18 Adult Adult Gonad Reproductive System
34440 34440 SRR31754978 SRX27116831 SRS23574552 SRP552202 PRJNA1199694 Zebrafish ovarian RNA seq PRJNA1199694 Other Adult female zebrafish ovaries were taken for subsequent analyses.In this study we used RNA seq results to uncover the key pathways involved in ovarian damage caused by single and combined exposure to EPO and AFB1.         ovary CK2   strain:not collected|isolate:ovary CK1|breed:bred in tanks|cultivar:not collected|ecotype:wild type AB|age:7 mpf|dev stage:Adult zebrafish|collection date:2023 12 03|geo loc name:China: Zhejiang|sex:female|tissue:ovary|replicate:biological replicate 1|BioSampleModel:Model organism or animal                 transcriptomic sequencing LRA172643 LRA172643 The mRNA with polyA tail was enriched by OligodT magnetic beads to construct a library     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP552202     CK2_R1.fastq.gz CK2_R2.fastq.gz fastq fastq 5845696220.0 19356610.0 CK2 R1.fastq.gz 0:151 1:151 A:1536028365;C:1371120321;G:1397988722;T:1540426903;N:131909 151 151     1536028365 1371120321 1397988722 1540426903 131909 SRX27116831 SRS23574552 SRA2036776 shandong university|School of Public Health shandong university                       B B biological fallback assumption illumina novaseq_era unknown poly_a unknown bulk unknown unknown   China 2024-12-18 Adult Adult Gonad Reproductive System
55325 55325 SRR10272860 SRX6986072 SRS5509254 SRP225457 PRJNA577338 Testes transcriptomes of Wild Type and Rbm46 KO mutants PRJNA577338 Other Molecular consequences of Rbm46 depletion in zebrafish germ cells using RNA seq       Offspring2 Rbm46 KO   strain:Rbm46 KO|isolate:testes|breed:domescatited strains|cultivar:the animals were raised in circulating water in southwest university china|ecotype:the animals were raised in circulating water in southwest university china|age:4 mpf|dev stage:adult|sex:male|tissue:testes|BioSampleModel:Model organism or animal                 Rbm46 KO 2 2 Testes mRNA profiles of 4 mpf wild type WT and RNA binding protein 46 knockout Rbm46/ zebrafish were generated by deep sequencing mixed sample sequencing using Illumina NextSeq500. The reference genome index was firstly established through Bowtie2 then paired end clean reads were mapped to the zebrafish reference genome using Tophat2 v2.1.0 software according to the standard protocols. Differential expression analysis of control and rbm46 mutant samples was performed using CuffDiff . qRTPCR validation was performed using TaqMan and SYBR Green assays.     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP225457     RTm_R1.fq.gz RTm_R2.fq.gz fastq fastq 6904075800.0 23013586.0 RTm R1.fq.gz 0:150 1:150 A:1611007553;C:1839156029;G:1886442114;T:1567362562;N:107542 150 150     1611007553 1839156029 1886442114 1567362562 107542 SRX6986072 SRS5509254 SRA978539 southwest university|Key Laboratory of Freshwater Fish Reproduction and southwest university 2 0.92444 0.92193 0.04174 0.04016 0.67771 0.68308 0.47736 0.47445 150 150 B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   China 2019-10-14 Adult Adult Gonad Reproductive System
55326 55326 SRR10272861 SRX6986071 SRS5509253 SRP225457 PRJNA577338 Testes transcriptomes of Wild Type and Rbm46 KO mutants PRJNA577338 Other Molecular consequences of Rbm46 depletion in zebrafish germ cells using RNA seq       Offspring1 WT   strain:TU|isolate:testes|breed:domescatited strains|cultivar:the animals were raised in circulating water in southwest university china|ecotype:the animals were raised in circulating water in southwest university china|age:4 mpf|dev stage:adult|sex:male|tissue:testes|BioSampleModel:Model organism or animal                 WT 1 1 Testes mRNA profiles of 4 mpf wild type WT and RNA binding protein 46 knockout Rbm46/ zebrafish were generated by deep sequencing mixed sample sequencing using Illumina NextSeq500. The reference genome index was firstly established through Bowtie2 then paired end clean reads were mapped to the zebrafish reference genome using Tophat2 v2.1.0 software according to the standard protocols. Differential expression analysis of control and rbm46 mutant samples was performed using CuffDiff . qRTPCR validation was performed using TaqMan and SYBR Green assays.     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina HiSeq 2500   SRP225457     RTp_R1.fq.gz RTp_R2.fq.gz fastq fastq 7398975900.0 24663253.0 RTp R1.fq.gz 0:150 1:150 A:1736313214;C:1955736004;G:2024415158;T:1682435367;N:76157 150 150     1736313214 1955736004 2024415158 1682435367 76157 SRX6986071 SRS5509253 SRA978539 southwest university|Key Laboratory of Freshwater Fish Reproduction and southwest university 2 0.96064 0.95999 0.03755 0.03504 0.69171 0.69733 0.46738 0.47179 150 150 B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   China 2019-10-14 Adult Adult Gonad Reproductive System
56057 56057 SRR10854654 SRX7525039 SRS5964474 SRP240714 PRJNA599540 Danio rerio breed:TU Raw sequence reads PRJNA599540 Whole Genome Sequencing Testis of zebrafish e2f5 mutation RNA sequencing         testis of zebrafish wild type 2#   breed:zebrafish TU|dev stage:adult|sex:male|tissue:testis|genotype:wild type 2#|sample type:tissue sample|BioSampleModel:Model organism or animal                 testis of zebrafish wild type 2# 2B 2B Five testis were dissected from an normal adult zebrafish RNA extraction follows standard methods then the library was built according to standard methods.     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA HiSeq X Ten   SRP240714     B1_H7NNKALXX_L2_1.clean.fq.gz B1_H7NNKALXX_L2_2.clean.fq.gz fastq fastq 6927089100.0 23090297.0 B1 H7NNKALXX L2 1.clean.fq.gz 0:150 1:150 A:1891696044;C:1563823139;G:1593157744;T:1878401070;N:11103 150 150     1891696044 1563823139 1593157744 1878401070 11103 SRX7525039 SRS5964474 SRA1022555 Ocean University of China|Institute of Evolution & Marine Biodiversity Ocean University of China 2 0.92256 0.92367 0.09027 0.09106 0.63589 0.64926 0.48748 0.47974 150 150 B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   China 2020-01-08 Adult Adult Gonad Reproductive System
56058 56058 SRR10854655 SRX7525038 SRS5964473 SRP240714 PRJNA599540 Danio rerio breed:TU Raw sequence reads PRJNA599540 Whole Genome Sequencing Testis of zebrafish e2f5 mutation RNA sequencing         testis of zebrafish e2f5 mutation 2#   breed:zebrafish TU|dev stage:adult|sex:male|tissue:testis|genotype:e2f5 mutation 2#|sample type:tissue sample|BioSampleModel:Model organism or animal                 testis of zebrafish e2f5 mutation 2# 2A 2A Five testis were dissected from an mutation adult zebrafish RNA extraction follows standard methods then the library was built according to standard methods.     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA HiSeq X Ten   SRP240714     A1_H7NNKALXX_L2_2.clean.fq.gz A1_H7NNKALXX_L2_1.clean.fq.gz fastq fastq 6093225300.0 20310751.0 A1 H7NNKALXX L2 1.clean.fq.gz 0:150 1:150 A:1625173848;C:1409934388;G:1444779781;T:1613327573;N:9710 150 150     1625173848 1409934388 1444779781 1613327573 9710 SRX7525038 SRS5964473 SRA1022555 Ocean University of China|Institute of Evolution & Marine Biodiversity Ocean University of China 2 0.92166 0.92524 0.08115 0.08224 0.65782 0.67194 0.49537 0.49642 150 150 B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   China 2020-01-08 Adult Adult Gonad Reproductive System
56059 56059 SRR10854656 SRX7525037 SRS5964472 SRP240714 PRJNA599540 Danio rerio breed:TU Raw sequence reads PRJNA599540 Whole Genome Sequencing Testis of zebrafish e2f5 mutation RNA sequencing         testis of zebrafish wild type 1#   breed:zebrafish TU|dev stage:adult|sex:male|tissue:testis|genotype:wild type 1#|sample type:tissue sample|BioSampleModel:Model organism or animal                 testis of zebrafish wild type 1# 1B 1B Five testis were dissected from an normal adult zebrafish RNA extraction follows standard methods then the library was built according to standard methods.     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA HiSeq X Ten   SRP240714     B1_R1.fq.gz B1_R2.fq.gz fastq fastq 6288047400.0 20960158.0 B1 R1.fq.gz 0:150 1:150 A:1678186708;C:1472395501;G:1463062231;T:1674239286;N:163674 150 150     1678186708 1472395501 1463062231 1674239286 163674 SRX7525037 SRS5964472 SRA1022555 Ocean University of China|Institute of Evolution & Marine Biodiversity Ocean University of China 2 0.94474 0.9457 0.05797 0.05677 0.65399 0.65971 0.50929 0.50392 150 150 B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   China 2020-01-08 Adult Adult Gonad Reproductive System
56060 56060 SRR10854657 SRX7525036 SRS5964471 SRP240714 PRJNA599540 Danio rerio breed:TU Raw sequence reads PRJNA599540 Whole Genome Sequencing Testis of zebrafish e2f5 mutation RNA sequencing         testis of zebrafish e2f5 mutation 1#   breed:zebrafish TU|dev stage:adult|sex:male|tissue:testis|genotype:e2f5 mutation 1#|sample type:tissue sample|BioSampleModel:Model organism or animal                 testis of zebrafish e2f5 mutation 1# 1A 1A Five testis were dissected from an mutation adult zebrafish RNA extraction follows standard methods then the library was built according to standard methods.     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA HiSeq X Ten   SRP240714     A1_R1.fq.gz A1_R2.fq.gz fastq fastq 6164618400.0 20548728.0 A1 R1.fq.gz 0:150 1:150 A:1649311047;C:1437521302;G:1430634813;T:1646989330;N:161908 150 150     1649311047 1437521302 1430634813 1646989330 161908 SRX7525036 SRS5964471 SRA1022555 Ocean University of China|Institute of Evolution & Marine Biodiversity Ocean University of China 2 0.94202 0.94471 0.06268 0.0626 0.64551 0.65283 0.50741 0.51019 150 150 B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   China 2020-01-08 Adult Adult Gonad Reproductive System
60599 60599 SRR12432918 SRX8928709 SRS7184991 SRP277140 PRJNA656674 EGFR mutant Danio rerio ovary raw sequence reads PRJNA656674 Whole Genome Sequencing The ovaries of 45 dpf zebrafish were separated. Transcriptome analysis between EGFR mutant and wildtype zebrafish was conducted in this project.     The zebrafish ovaries isolated from 45 dpf female were analyzed. Ovary of 45 dpf Danio rerio zebrafish   strain:AB|age:45 dpf|dev stage:puberty|sex:female|tissue:ovary|BioSampleModel:Model organism or animal                 WT2 5 5 common method     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina iSeq 100   SRP277140     egfraWT2_1.fq.gz egfraWT2_2.fq.gz fastq fastq 4505046300.0 15016821.0 egfraWT2 1.fq.gz 0:150 1:150 A:1178064156;C:1082694104;G:1073742824;T:1169756132;N:789084 150 150     1178064156 1082694104 1073742824 1169756132 789084 SRX8928709 SRS7184991 SRA1111906 Faculty of Health Sciences, University of Macau|Centre of Reproduction, Development and Aging Faculty of Health Sciences, University of Macau 2 0.89561 0.8985 0.02356 0.02385 0.74383 0.74953 0.47901 0.47332 150 150 B B biological fallback assumption illumina miseq unknown other unknown bulk unknown unknown   China 2020-08-12 Juvenile Juvenile Gonad Reproductive System
60600 60600 SRR12432919 SRX8928708 SRS7184991 SRP277140 PRJNA656674 EGFR mutant Danio rerio ovary raw sequence reads PRJNA656674 Whole Genome Sequencing The ovaries of 45 dpf zebrafish were separated. Transcriptome analysis between EGFR mutant and wildtype zebrafish was conducted in this project.     The zebrafish ovaries isolated from 45 dpf female were analyzed. Ovary of 45 dpf Danio rerio zebrafish   strain:AB|age:45 dpf|dev stage:puberty|sex:female|tissue:ovary|BioSampleModel:Model organism or animal                 WT1 4 4 common method     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina iSeq 100   SRP277140     egfraWT1_2.fq.gz egfraWT1_1.fq.gz fastq fastq 4315818300.0 14386061.0 egfraWT1 1.fq.gz 0:150 1:150 A:1130385340;C:1035711280;G:1025882601;T:1123083064;N:756015 150 150     1130385340 1035711280 1025882601 1123083064 756015 SRX8928708 SRS7184991 SRA1111906 Faculty of Health Sciences, University of Macau|Centre of Reproduction, Development and Aging Faculty of Health Sciences, University of Macau 2 0.90084 0.90364 0.02361 0.0238 0.73941 0.74452 0.4717 0.47805 150 150 B B biological fallback assumption illumina miseq unknown other unknown bulk unknown unknown   China 2020-08-12 Juvenile Juvenile Gonad Reproductive System
60601 60601 SRR12432920 SRX8928707 SRS7184991 SRP277140 PRJNA656674 EGFR mutant Danio rerio ovary raw sequence reads PRJNA656674 Whole Genome Sequencing The ovaries of 45 dpf zebrafish were separated. Transcriptome analysis between EGFR mutant and wildtype zebrafish was conducted in this project.     The zebrafish ovaries isolated from 45 dpf female were analyzed. Ovary of 45 dpf Danio rerio zebrafish   strain:AB|age:45 dpf|dev stage:puberty|sex:female|tissue:ovary|BioSampleModel:Model organism or animal                 KO3 3 3 common method     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina iSeq 100   SRP277140     egfraKO3_2.fq.gz egfraKO3_1.fq.gz fastq fastq 8905879200.0 29686264.0 egfraKO3 1.fq.gz 0:150 1:150 A:2348479134;C:2123503765;G:2100165882;T:2332167190;N:1563229 150 150     2348479134 2123503765 2100165882 2332167190 1563229 SRX8928707 SRS7184991 SRA1111906 Faculty of Health Sciences, University of Macau|Centre of Reproduction, Development and Aging Faculty of Health Sciences, University of Macau 2 0.89938 0.90015 0.02459 0.02443 0.73959 0.74619 0.47427 0.48032 150 150 B B biological fallback assumption illumina miseq unknown other unknown bulk unknown unknown   China 2020-08-12 Juvenile Juvenile Gonad Reproductive System
60602 60602 SRR12432921 SRX8928706 SRS7184991 SRP277140 PRJNA656674 EGFR mutant Danio rerio ovary raw sequence reads PRJNA656674 Whole Genome Sequencing The ovaries of 45 dpf zebrafish were separated. Transcriptome analysis between EGFR mutant and wildtype zebrafish was conducted in this project.     The zebrafish ovaries isolated from 45 dpf female were analyzed. Ovary of 45 dpf Danio rerio zebrafish   strain:AB|age:45 dpf|dev stage:puberty|sex:female|tissue:ovary|BioSampleModel:Model organism or animal                 KO2 2 2 common method     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina iSeq 100   SRP277140     egfraKO2_1.fq.gz egfraKO2_2.fq.gz fastq fastq 8150314500.0 27167715.0 egfraKO2 1.fq.gz 0:150 1:150 A:2142556905;C:1947068596;G:1929502017;T:2129761480;N:1425502 150 150     2142556905 1947068596 1929502017 2129761480 1425502 SRX8928706 SRS7184991 SRA1111906 Faculty of Health Sciences, University of Macau|Centre of Reproduction, Development and Aging Faculty of Health Sciences, University of Macau 2 0.89813 0.89911 0.0236 0.0243 0.74562 0.75097 0.47766 0.48014 150 150 B B biological fallback assumption illumina miseq unknown other unknown bulk unknown unknown   China 2020-08-12 Juvenile Juvenile Gonad Reproductive System
60603 60603 SRR12432922 SRX8928705 SRS7184991 SRP277140 PRJNA656674 EGFR mutant Danio rerio ovary raw sequence reads PRJNA656674 Whole Genome Sequencing The ovaries of 45 dpf zebrafish were separated. Transcriptome analysis between EGFR mutant and wildtype zebrafish was conducted in this project.     The zebrafish ovaries isolated from 45 dpf female were analyzed. Ovary of 45 dpf Danio rerio zebrafish   strain:AB|age:45 dpf|dev stage:puberty|sex:female|tissue:ovary|BioSampleModel:Model organism or animal                 KO1 1 1 common method     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina iSeq 100   SRP277140     egfraKO1_1.fq.gz egfraKO1_2.fq.gz fastq fastq 8737229100.0 29124097.0 egfraKO1 1.fq.gz 0:150 1:150 A:2303932995;C:2082372983;G:2062052221;T:2287339032;N:1531869 150 150     2303932995 2082372983 2062052221 2287339032 1531869 SRX8928705 SRS7184991 SRA1111906 Faculty of Health Sciences, University of Macau|Centre of Reproduction, Development and Aging Faculty of Health Sciences, University of Macau 2 0.89994 0.9013 0.02483 0.02509 0.74497 0.7511 0.47316 0.4729 150 150 B B biological fallback assumption illumina miseq unknown other unknown bulk unknown unknown   China 2020-08-12 Juvenile Juvenile Gonad Reproductive System
60604 60604 SRR12432923 SRX8928704 SRS7184991 SRP277140 PRJNA656674 EGFR mutant Danio rerio ovary raw sequence reads PRJNA656674 Whole Genome Sequencing The ovaries of 45 dpf zebrafish were separated. Transcriptome analysis between EGFR mutant and wildtype zebrafish was conducted in this project.     The zebrafish ovaries isolated from 45 dpf female were analyzed. Ovary of 45 dpf Danio rerio zebrafish   strain:AB|age:45 dpf|dev stage:puberty|sex:female|tissue:ovary|BioSampleModel:Model organism or animal                 WT3 6 6 common method     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina iSeq 100   SRP277140     egfraWT3_1.fq.gz egfraWT3_2.fq.gz fastq fastq 4200074700.0 14000249.0 egfraWT3 1.fq.gz 0:150 1:150 A:1106327217;C:1001998393;G:992359377;T:1098651320;N:738393 150 150     1106327217 1001998393 992359377 1098651320 738393 SRX8928704 SRS7184991 SRA1111906 Faculty of Health Sciences, University of Macau|Centre of Reproduction, Development and Aging Faculty of Health Sciences, University of Macau 2 0.89695 0.90079 0.02495 0.0254 0.74304 0.74795 0.47396 0.48144 150 150 B B biological fallback assumption illumina miseq unknown other unknown bulk unknown unknown   China 2020-08-12 Juvenile Juvenile Gonad Reproductive System
70758 70758 SRR20184254 SRX16219130 SRS13860288 SRP386369 PRJNA858620 Transcriptomic analysis post immune stimulation by LPS in the zebrafish testes PRJNA858620 Other Exposing male zebrafish to interperitonal injection of LPS to initiate an immune response to measure transcriptomic changes in testes         IP CT5   strain:AB|age:110 dpf|dev stage:adult|sex:male|tissue:testis|treatment:CTRL|replicate:3|BioSampleModel:Model organism or animal                 LPS testis 1 AH7053 AH7053 The libraries were sequenced on HiSeq 4000 Illumina Inc with a read length of 2x76bp using HiSeq 4000 SBS kit in a fraction of a HiSeq 4000 PE Cluster kit sequencing flow cell lane generating in a mean 50 million paired end reads per sample. Image analysis base calling and quality scoring of the run were processed using the manufacturers software Real Time Analysis     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP386369     H5CV7BBXY_6_108UDI-idt-UMI_1.fastq.gz H5CV7BBXY_6_108UDI-idt-UMI_2.fastq.gz fastq fastq 7013524568.0 46141609.0 H5CV7BBXY 6 108UDI idt UMI 1.fastq.gz 0:76 1:76 A:1850782370;C:1641618168;G:1616110920;T:1904001161;N:1011949 76 76     1850782370 1641618168 1616110920 1904001161 1011949 SRX16219130 SRS13860288 SRA1454581 Institute of Marine Sciences|Repro-Immune Team Institute of Marine Sciences 2 0.93148 0.9244 0.11679 0.11675 0.63725 0.64384 0.49641 0.49966 76 76 B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   United States 2022-07-14 Adult Adult Gonad Reproductive System
70759 70759 SRR20184255 SRX16219129 SRS13860287 SRP386369 PRJNA858620 Transcriptomic analysis post immune stimulation by LPS in the zebrafish testes PRJNA858620 Other Exposing male zebrafish to interperitonal injection of LPS to initiate an immune response to measure transcriptomic changes in testes         IP CT3   strain:AB|age:110 dpf|dev stage:adult|sex:male|tissue:testis|treatment:CTRL|replicate:2|BioSampleModel:Model organism or animal                 LPS testis 1 AH7052 AH7052 The libraries were sequenced on HiSeq 4000 Illumina Inc with a read length of 2x76bp using HiSeq 4000 SBS kit in a fraction of a HiSeq 4000 PE Cluster kit sequencing flow cell lane generating in a mean 50 million paired end reads per sample. Image analysis base calling and quality scoring of the run were processed using the manufacturers software Real Time Analysis     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP386369     H5CTWBBXY_4_48UDI-idt-UMI_1.fastq.gz H5CTWBBXY_4_48UDI-idt-UMI_2.fastq.gz H5CV7BBXY_6_48UDI-idt-UMI_1.fastq.gz H5CV7BBXY_6_48UDI-idt-UMI_2.fastq.gz fastq fastq fastq fastq 9648241952.0 63475276.0 H5CTWBBXY 4 48UDI idt UMI 1.fastq.gz 0:76 1:76 A:2522094588;C:2285164431;G:2245546783;T:2593693087;N:1743063 76 76     2522094588 2285164431 2245546783 2593693087 1743063 SRX16219129 SRS13860287 SRA1454581 Institute of Marine Sciences|Repro-Immune Team Institute of Marine Sciences 2 0.93457 0.92854 0.13232 0.13369 0.63613 0.63968 0.52061 0.51775 76 76 B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   United States 2022-07-14 Adult Adult Gonad Reproductive System
70760 70760 SRR20184256 SRX16219128 SRS13860286 SRP386369 PRJNA858620 Transcriptomic analysis post immune stimulation by LPS in the zebrafish testes PRJNA858620 Other Exposing male zebrafish to interperitonal injection of LPS to initiate an immune response to measure transcriptomic changes in testes         IP CT2   strain:AB|age:110 dpf|dev stage:adult|sex:male|tissue:testis|treatment:CTRL|replicate:1|BioSampleModel:Model organism or animal                 LPS testis 1 AH7051 AH7051 The libraries were sequenced on HiSeq 4000 Illumina Inc with a read length of 2x76bp using HiSeq 4000 SBS kit in a fraction of a HiSeq 4000 PE Cluster kit sequencing flow cell lane generating in a mean 50 million paired end reads per sample. Image analysis base calling and quality scoring of the run were processed using the manufacturers software Real Time Analysis     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP386369     H5CV7BBXY_6_36UDI-idt-UMI_1.fastq.gz H5CV7BBXY_6_36UDI-idt-UMI_2.fastq.gz fastq fastq 6170188744.0 40593347.0 H5CV7BBXY 6 36UDI idt UMI 1.fastq.gz 0:76 1:76 A:1619774791;C:1453140407;G:1428465104;T:1667922740;N:885702 76 76     1619774791 1453140407 1428465104 1667922740 885702 SRX16219128 SRS13860286 SRA1454581 Institute of Marine Sciences|Repro-Immune Team Institute of Marine Sciences 2 0.93231 0.92584 0.14044 0.13985 0.63282 0.64031 0.51262 0.50919 76 76 B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   United States 2022-07-14 Adult Adult Gonad Reproductive System
70761 70761 SRR20184257 SRX16219127 SRS13860284 SRP386369 PRJNA858620 Transcriptomic analysis post immune stimulation by LPS in the zebrafish testes PRJNA858620 Other Exposing male zebrafish to interperitonal injection of LPS to initiate an immune response to measure transcriptomic changes in testes         IP AH3   strain:AB|age:110 dpf|dev stage:adult|sex:male|tissue:testis|treatment:LPS|replicate:3|BioSampleModel:Model organism or animal                 LPS testis 1 AH7049 AH7049 The libraries were sequenced on HiSeq 4000 Illumina Inc with a read length of 2x76bp using HiSeq 4000 SBS kit in a fraction of a HiSeq 4000 PE Cluster kit sequencing flow cell lane generating in a mean 50 million paired end reads per sample. Image analysis base calling and quality scoring of the run were processed using the manufacturers software Real Time Analysis     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP386369     H5CV7BBXY_8_24UDI-idt-UMI_1.fastq.gz H5CV7BBXY_8_24UDI-idt-UMI_2.fastq.gz fastq fastq 6891562960.0 45339230.0 H5CV7BBXY 8 24UDI idt UMI 1.fastq.gz 0:76 1:76 A:1862738206;C:1574649875;G:1554799585;T:1899340725;N:34569 76 76     1862738206 1574649875 1554799585 1899340725 34569 SRX16219127 SRS13860284 SRA1454581 Institute of Marine Sciences|Repro-Immune Team Institute of Marine Sciences 2 0.92859 0.92187 0.13479 0.13586 0.62016 0.62538 0.5165 0.51173 76 76 B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   United States 2022-07-14 Adult Adult Gonad Reproductive System
70762 70762 SRR20184258 SRX16219126 SRS13860285 SRP386369 PRJNA858620 Transcriptomic analysis post immune stimulation by LPS in the zebrafish testes PRJNA858620 Other Exposing male zebrafish to interperitonal injection of LPS to initiate an immune response to measure transcriptomic changes in testes         IP AH2   strain:AB|age:110 dpf|dev stage:adult|sex:male|tissue:testis|treatment:LPS|replicate:2|BioSampleModel:Model organism or animal                 LPS testis 1 AH7054 AH7054 The libraries were sequenced on HiSeq 4000 Illumina Inc with a read length of 2x76bp using HiSeq 4000 SBS kit in a fraction of a HiSeq 4000 PE Cluster kit sequencing flow cell lane generating in a mean 50 million paired end reads per sample. Image analysis base calling and quality scoring of the run were processed using the manufacturers software Real Time Analysis     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP386369     H5CTWBBXY_4_120UDI-idt-UMI_1.fastq.gz H5CTWBBXY_4_120UDI-idt-UMI_2.fastq.gz H5CV7BBXY_6_120UDI-idt-UMI_1.fastq.gz H5CV7BBXY_6_120UDI-idt-UMI_2.fastq.gz fastq fastq fastq fastq 9687193472.0 63731536.0 H5CTWBBXY 4 120UDI idt UMI 1.fastq.gz 0:76 1:76 A:2526500453;C:2299216691;G:2261556756;T:2598145879;N:1773693 76 76     2526500453 2299216691 2261556756 2598145879 1773693 SRX16219126 SRS13860285 SRA1454581 Institute of Marine Sciences|Repro-Immune Team Institute of Marine Sciences 2 0.93579 0.92891 0.13404 0.13421 0.63696 0.64283 0.51831 0.49973 76 76 B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   United States 2022-07-14 Adult Adult Gonad Reproductive System
70763 70763 SRR20184259 SRX16219125 SRS13860283 SRP386369 PRJNA858620 Transcriptomic analysis post immune stimulation by LPS in the zebrafish testes PRJNA858620 Other Exposing male zebrafish to interperitonal injection of LPS to initiate an immune response to measure transcriptomic changes in testes         IP AH1   strain:AB|age:110 dpf|dev stage:adult|sex:male|tissue:testis|treatment:LPS|replicate:1|BioSampleModel:Model organism or animal                 LPS testis 1 AH7048 AH7048 The libraries were sequenced on HiSeq 4000 Illumina Inc with a read length of 2x76bp using HiSeq 4000 SBS kit in a fraction of a HiSeq 4000 PE Cluster kit sequencing flow cell lane generating in a mean 50 million paired end reads per sample. Image analysis base calling and quality scoring of the run were processed using the manufacturers software Real Time Analysis     RNA-Seq TRANSCRIPTOMIC RT-PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP386369     H5CV7BBXY_5_12UDI-idt-UMI_1.fastq.gz H5CV7BBXY_5_12UDI-idt-UMI_2.fastq.gz fastq fastq 8191776432.0 53893266.0 H5CV7BBXY 5 12UDI idt UMI 1.fastq.gz 0:76 1:76 A:2172515060;C:1909882455;G:1886889579;T:2221431864;N:1057474 76 76     2172515060 1909882455 1886889579 2221431864 1057474 SRX16219125 SRS13860283 SRA1454581 Institute of Marine Sciences|Repro-Immune Team Institute of Marine Sciences 2 0.93149 0.92502 0.12788 0.12735 0.6215 0.62672 0.50445 0.50303 76 76 B B biological fallback assumption illumina hiseq_era unknown other unknown bulk unknown unknown   United States 2022-07-14 Adult Adult Gonad Reproductive System

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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");;