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699 rows where devstage_curation_coarse = "Adult" and experiment.library_selection = "PCR"

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tissue_curation >10

technology 5

experiment.library_strategy 5

experiment.platform 4

experiment.library_source 2

experiment.library_layout 2

devstage_curation 2

experiment.library_selection 1

  • PCR · 699 ✖

devstage_curation_coarse 1

  • Adult · 699 ✖
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
8076 8076 ERR2304209 ERX2355537 ERS2201745 ERP106721 PRJEB24858 Zebrafish modelling familialAlzheimer's disease using heterozygous K97fs mutation in locus psen1 ena-STUDY-Adelaide Bioinformatics Hub-08-02-2018-04:47:34:743-1099 Other RNA seq analysis of whole brains from zebrafish possessing a heterozygous K97fs mutation in psen1 to model familial Alzheimer's disease Total RNA was extracted from the whole brains of mutant and wild type zebrafish when they were either 6 mpf young adult or 24 mpf infertile adult. Mutant zebrafish possess a heterozygous K97fs mutation at the endogenous zebrafish psen1 locus while wild type zebrafish do not. ENA FIRST PUBLIC:2018 05 11|ENA LAST UPDATE:2018 02 08     Aged mutant biorep3 SAMEA104590463 Adelaide Bioinformatics Hub ENA first public:2018 05 11|ENA last update:2018 02 14|External Id:SAMEA104590463|INSDC center alias:Adelaide Bioinformatics Hub|INSDC center name:Adelaide Bioinformatics Hub|INSDC first public:2018 05 11T17:03:03Z|INSDC last update:2018 02 14T06:16:03Z|INSDC status:public|Submitter Id:Aged mutant biorep3|common name:zebrafish|sample name:Aged mutant biorep3                 NextSeq 500 paired end sequencing ena EXPERIMENT Adelaide Bioinformatics Hub 15 02 2018 04:44:34:534 12 9 psen1K97Gfshet 24mth 13 03 2014 S3 fem RNA seq analysis of whole brains from zebrafish possessing a heterozygous K97fs mutation in psen1 to model familial Alzheimer's disease Total RNA was extracted from whole brains using the mirVana miRNA isolation kit ThermoFisher using the manufacturer's protocol.   RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA NextSeq 500   ERP106721 NextSeq 500 paired end sequencing ENA FIRST PUBLIC:2018 05 11|ENA LAST UPDATE:2018 11 16 9_psen1K97Gfshet_24mth_13_03_2014_S3_fem_R1.fastq.gz 9_psen1K97Gfshet_24mth_13_03_2014_S3_fem_R2.fastq.gz fastq fastq 9318039088.0 38360343.0 ena RUN Adelaide Bioinformatics Hub 15 02 2018 04:44:34:534 12 0:121.17 1:121.74 A:2583644589;C:2091813317;G:2105322994;T:2536795040;N:463148 121 121     2583644589 2091813317 2105322994 2536795040 463148 ERX2355537 ERS2201745 ERA1210082 Adelaide Bioinformatics Hub|European Nucleotide Archive Adelaide Bioinformatics Hub 2 0.93003 0.92836 0.26254 0.26157 0.68992 0.69593 0.48246 0.48292 134 134 B B biological fallback assumption illumina nextseq unknown random_priming unknown bulk unknown unknown   Australia 2018-02-08 Undetermined Adult Brain Nervous System
8077 8077 ERR2304208 ERX2355536 ERS2201744 ERP106721 PRJEB24858 Zebrafish modelling familialAlzheimer's disease using heterozygous K97fs mutation in locus psen1 ena-STUDY-Adelaide Bioinformatics Hub-08-02-2018-04:47:34:743-1099 Other RNA seq analysis of whole brains from zebrafish possessing a heterozygous K97fs mutation in psen1 to model familial Alzheimer's disease Total RNA was extracted from the whole brains of mutant and wild type zebrafish when they were either 6 mpf young adult or 24 mpf infertile adult. Mutant zebrafish possess a heterozygous K97fs mutation at the endogenous zebrafish psen1 locus while wild type zebrafish do not. ENA FIRST PUBLIC:2018 05 11|ENA LAST UPDATE:2018 02 08     Aged mutant biorep2 SAMEA104590462 Adelaide Bioinformatics Hub ENA first public:2018 05 11|ENA last update:2018 02 14|External Id:SAMEA104590462|INSDC center alias:Adelaide Bioinformatics Hub|INSDC center name:Adelaide Bioinformatics Hub|INSDC first public:2018 05 11T17:03:03Z|INSDC last update:2018 02 14T06:16:03Z|INSDC status:public|Submitter Id:Aged mutant biorep2|common name:zebrafish|sample name:Aged mutant biorep2                 NextSeq 500 paired end sequencing ena EXPERIMENT Adelaide Bioinformatics Hub 15 02 2018 04:44:34:534 11 8 psen1K97Gfshet 24mth 13 03 2014 S2 fem RNA seq analysis of whole brains from zebrafish possessing a heterozygous K97fs mutation in psen1 to model familial Alzheimer's disease Total RNA was extracted from whole brains using the mirVana miRNA isolation kit ThermoFisher using the manufacturer's protocol.   RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA NextSeq 500   ERP106721 NextSeq 500 paired end sequencing ENA FIRST PUBLIC:2018 05 11|ENA LAST UPDATE:2018 11 16 8_psen1K97Gfshet_24mth_13_03_2014_S2_fem_R1.fastq.gz 8_psen1K97Gfshet_24mth_13_03_2014_S2_fem_R2.fastq.gz fastq fastq 8559244581.0 35608377.0 ena RUN Adelaide Bioinformatics Hub 15 02 2018 04:44:34:534 11 0:119.87 1:120.50 A:2397336730;C:1892236963;G:1910506310;T:2358778868;N:385710 119 120     2397336730 1892236963 1910506310 2358778868 385710 ERX2355536 ERS2201744 ERA1210082 Adelaide Bioinformatics Hub|European Nucleotide Archive Adelaide Bioinformatics Hub 2 0.92422 0.92311 0.30514 0.30437 0.69578 0.7008 0.49054 0.48857 150 150 B B biological fallback assumption illumina nextseq unknown random_priming unknown bulk unknown unknown   Australia 2018-02-08 Undetermined Adult Brain Nervous System
8078 8078 ERR2304207 ERX2355535 ERS2201743 ERP106721 PRJEB24858 Zebrafish modelling familialAlzheimer's disease using heterozygous K97fs mutation in locus psen1 ena-STUDY-Adelaide Bioinformatics Hub-08-02-2018-04:47:34:743-1099 Other RNA seq analysis of whole brains from zebrafish possessing a heterozygous K97fs mutation in psen1 to model familial Alzheimer's disease Total RNA was extracted from the whole brains of mutant and wild type zebrafish when they were either 6 mpf young adult or 24 mpf infertile adult. Mutant zebrafish possess a heterozygous K97fs mutation at the endogenous zebrafish psen1 locus while wild type zebrafish do not. ENA FIRST PUBLIC:2018 05 11|ENA LAST UPDATE:2018 02 08     Aged mutant biorep1 SAMEA104590461 Adelaide Bioinformatics Hub ENA first public:2018 05 11|ENA last update:2018 02 14|External Id:SAMEA104590461|INSDC center alias:Adelaide Bioinformatics Hub|INSDC center name:Adelaide Bioinformatics Hub|INSDC first public:2018 05 11T17:03:03Z|INSDC last update:2018 02 14T06:16:03Z|INSDC status:public|Submitter Id:Aged mutant biorep1|common name:zebrafish|sample name:Aged mutant biorep1                 NextSeq 500 paired end sequencing ena EXPERIMENT Adelaide Bioinformatics Hub 15 02 2018 04:44:34:534 10 7 psen1K97Gfshet 24mth 13 03 2014 S1 fem RNA seq analysis of whole brains from zebrafish possessing a heterozygous K97fs mutation in psen1 to model familial Alzheimer's disease Total RNA was extracted from whole brains using the mirVana miRNA isolation kit ThermoFisher using the manufacturer's protocol.   RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA NextSeq 500   ERP106721 NextSeq 500 paired end sequencing ENA FIRST PUBLIC:2018 05 11|ENA LAST UPDATE:2018 11 16 7_psen1K97Gfshet_24mth_13_03_2014_S1_fem_R1.fastq.gz 7_psen1K97Gfshet_24mth_13_03_2014_S1_fem_R2.fastq.gz fastq fastq 6521711648.0 27182062.0 ena RUN Adelaide Bioinformatics Hub 15 02 2018 04:44:34:534 10 0:119.65 1:120.27 A:1831722484;C:1434689482;G:1449266189;T:1805677755;N:355738 119 120     1831722484 1434689482 1449266189 1805677755 355738 ERX2355535 ERS2201743 ERA1210082 Adelaide Bioinformatics Hub|European Nucleotide Archive Adelaide Bioinformatics Hub 2 0.92564 0.92498 0.29344 0.29212 0.69327 0.69964 0.48557 0.48942 86 86 B B biological fallback assumption illumina nextseq unknown random_priming unknown bulk unknown unknown   Australia 2018-02-08 Undetermined Adult Brain Nervous System
8079 8079 ERR2304206 ERX2355534 ERS2201742 ERP106721 PRJEB24858 Zebrafish modelling familialAlzheimer's disease using heterozygous K97fs mutation in locus psen1 ena-STUDY-Adelaide Bioinformatics Hub-08-02-2018-04:47:34:743-1099 Other RNA seq analysis of whole brains from zebrafish possessing a heterozygous K97fs mutation in psen1 to model familial Alzheimer's disease Total RNA was extracted from the whole brains of mutant and wild type zebrafish when they were either 6 mpf young adult or 24 mpf infertile adult. Mutant zebrafish possess a heterozygous K97fs mutation at the endogenous zebrafish psen1 locus while wild type zebrafish do not. ENA FIRST PUBLIC:2018 05 11|ENA LAST UPDATE:2018 02 08     Aged wild type biorep3 SAMEA104590460 Adelaide Bioinformatics Hub ENA first public:2018 05 11|ENA last update:2018 02 14|External Id:SAMEA104590460|INSDC center alias:Adelaide Bioinformatics Hub|INSDC center name:Adelaide Bioinformatics Hub|INSDC first public:2018 05 11T17:03:03Z|INSDC last update:2018 02 14T06:16:03Z|INSDC status:public|Submitter Id:Aged wild type biorep3|common name:zebrafish|sample name:Aged wild type biorep3                 NextSeq 500 paired end sequencing ena EXPERIMENT Adelaide Bioinformatics Hub 15 02 2018 04:44:34:534 9 3 non mutant K97Gfs 24mth 13 03 2014 S3 fem RNA seq analysis of whole brains from zebrafish possessing a heterozygous K97fs mutation in psen1 to model familial Alzheimer's disease Total RNA was extracted from whole brains using the mirVana miRNA isolation kit ThermoFisher using the manufacturer's protocol.   RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA NextSeq 500   ERP106721 NextSeq 500 paired end sequencing ENA FIRST PUBLIC:2018 05 11|ENA LAST UPDATE:2018 11 16 3_non_mutant_K97Gfs_24mth_13_03_2014_S3_fem_R1.fastq.gz 3_non_mutant_K97Gfs_24mth_13_03_2014_S3_fem_R2.fastq.gz fastq fastq 6865452019.0 28646225.0 ena RUN Adelaide Bioinformatics Hub 15 02 2018 04:44:34:534 9 0:119.50 1:120.16 A:1903309108;C:1535570672;G:1550661363;T:1875578941;N:331935 119 120     1903309108 1535570672 1550661363 1875578941 331935 ERX2355534 ERS2201742 ERA1210082 Adelaide Bioinformatics Hub|European Nucleotide Archive Adelaide Bioinformatics Hub 2 0.92997 0.92904 0.26949 0.26497 0.69485 0.70072 0.49378 0.50075 96 96 B B biological fallback assumption illumina nextseq unknown random_priming unknown bulk unknown unknown   Australia 2018-02-08 Undetermined Adult Brain Nervous System
8080 8080 ERR2304205 ERX2355533 ERS2201741 ERP106721 PRJEB24858 Zebrafish modelling familialAlzheimer's disease using heterozygous K97fs mutation in locus psen1 ena-STUDY-Adelaide Bioinformatics Hub-08-02-2018-04:47:34:743-1099 Other RNA seq analysis of whole brains from zebrafish possessing a heterozygous K97fs mutation in psen1 to model familial Alzheimer's disease Total RNA was extracted from the whole brains of mutant and wild type zebrafish when they were either 6 mpf young adult or 24 mpf infertile adult. Mutant zebrafish possess a heterozygous K97fs mutation at the endogenous zebrafish psen1 locus while wild type zebrafish do not. ENA FIRST PUBLIC:2018 05 11|ENA LAST UPDATE:2018 02 08     Aged wild type biorep2 SAMEA104590459 Adelaide Bioinformatics Hub ENA first public:2018 05 11|ENA last update:2018 02 14|External Id:SAMEA104590459|INSDC center alias:Adelaide Bioinformatics Hub|INSDC center name:Adelaide Bioinformatics Hub|INSDC first public:2018 05 11T17:03:03Z|INSDC last update:2018 02 14T06:16:03Z|INSDC status:public|Submitter Id:Aged wild type biorep2|common name:zebrafish|sample name:Aged wild type biorep2                 NextSeq 500 paired end sequencing ena EXPERIMENT Adelaide Bioinformatics Hub 15 02 2018 04:44:34:534 8 2 non mutant K97Gfs 24mth 13 03 2014 S2 fem RNA seq analysis of whole brains from zebrafish possessing a heterozygous K97fs mutation in psen1 to model familial Alzheimer's disease Total RNA was extracted from whole brains using the mirVana miRNA isolation kit ThermoFisher using the manufacturer's protocol.   RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA NextSeq 500   ERP106721 NextSeq 500 paired end sequencing ENA FIRST PUBLIC:2018 05 11|ENA LAST UPDATE:2018 11 16 2_non_mutant_K97Gfs_24mth_13_03_2014_S2_fem_R1.fastq.gz 2_non_mutant_K97Gfs_24mth_13_03_2014_S2_fem_R2.fastq.gz fastq fastq 8418868343.0 34905186.0 ena RUN Adelaide Bioinformatics Hub 15 02 2018 04:44:34:534 8 0:120.29 1:120.91 A:2334515884;C:1885784857;G:1900432559;T:2297775998;N:359045 120 120     2334515884 1885784857 1900432559 2297775998 359045 ERX2355533 ERS2201741 ERA1210082 Adelaide Bioinformatics Hub|European Nucleotide Archive Adelaide Bioinformatics Hub 2 0.93078 0.92967 0.25478 0.25365 0.69372 0.69938 0.4988 0.49709 132 132 B B biological fallback assumption illumina nextseq unknown random_priming unknown bulk unknown unknown   Australia 2018-02-08 Undetermined Adult Brain Nervous System
8081 8081 ERR2304204 ERX2355532 ERS2201740 ERP106721 PRJEB24858 Zebrafish modelling familialAlzheimer's disease using heterozygous K97fs mutation in locus psen1 ena-STUDY-Adelaide Bioinformatics Hub-08-02-2018-04:47:34:743-1099 Other RNA seq analysis of whole brains from zebrafish possessing a heterozygous K97fs mutation in psen1 to model familial Alzheimer's disease Total RNA was extracted from the whole brains of mutant and wild type zebrafish when they were either 6 mpf young adult or 24 mpf infertile adult. Mutant zebrafish possess a heterozygous K97fs mutation at the endogenous zebrafish psen1 locus while wild type zebrafish do not. ENA FIRST PUBLIC:2018 05 11|ENA LAST UPDATE:2018 02 08     Aged wild type biorep1 SAMEA104590458 Adelaide Bioinformatics Hub ENA first public:2018 05 11|ENA last update:2018 02 14|External Id:SAMEA104590458|INSDC center alias:Adelaide Bioinformatics Hub|INSDC center name:Adelaide Bioinformatics Hub|INSDC first public:2018 05 11T17:03:03Z|INSDC last update:2018 02 14T06:16:03Z|INSDC status:public|Submitter Id:Aged wild type biorep1|common name:zebrafish|sample name:Aged wild type biorep1                 NextSeq 500 paired end sequencing ena EXPERIMENT Adelaide Bioinformatics Hub 15 02 2018 04:44:34:534 7 1 non mutant K97Gfs 24mth 13 03 2014 S1 fem RNA seq analysis of whole brains from zebrafish possessing a heterozygous K97fs mutation in psen1 to model familial Alzheimer's disease Total RNA was extracted from whole brains using the mirVana miRNA isolation kit ThermoFisher using the manufacturer's protocol.   RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA NextSeq 500   ERP106721 NextSeq 500 paired end sequencing ENA FIRST PUBLIC:2018 05 11|ENA LAST UPDATE:2018 11 16 1_non_mutant_K97Gfs_24mth_13_03_2014_S1_fem_R1.fastq.gz 1_non_mutant_K97Gfs_24mth_13_03_2014_S1_fem_R2.fastq.gz fastq fastq 6628468736.0 27477727.0 ena RUN Adelaide Bioinformatics Hub 15 02 2018 04:44:34:534 7 0:120.31 1:120.92 A:1839014115;C:1487750495;G:1497160978;T:1804205119;N:338029 120 120     1839014115 1487750495 1497160978 1804205119 338029 ERX2355532 ERS2201740 ERA1210082 Adelaide Bioinformatics Hub|European Nucleotide Archive Adelaide Bioinformatics Hub 2 0.92916 0.92783 0.28453 0.28375 0.69798 0.70289 0.48132 0.48227 125 125 B B biological fallback assumption illumina nextseq unknown random_priming unknown bulk unknown unknown   Australia 2018-02-08 Undetermined Adult Brain Nervous System
8082 8082 ERR2304203 ERX2355531 ERS2201739 ERP106721 PRJEB24858 Zebrafish modelling familialAlzheimer's disease using heterozygous K97fs mutation in locus psen1 ena-STUDY-Adelaide Bioinformatics Hub-08-02-2018-04:47:34:743-1099 Other RNA seq analysis of whole brains from zebrafish possessing a heterozygous K97fs mutation in psen1 to model familial Alzheimer's disease Total RNA was extracted from the whole brains of mutant and wild type zebrafish when they were either 6 mpf young adult or 24 mpf infertile adult. Mutant zebrafish possess a heterozygous K97fs mutation at the endogenous zebrafish psen1 locus while wild type zebrafish do not. ENA FIRST PUBLIC:2018 05 11|ENA LAST UPDATE:2018 02 08     Young mutant biorep3 SAMEA104590457 Adelaide Bioinformatics Hub ENA first public:2018 05 11|ENA last update:2018 02 14|External Id:SAMEA104590457|INSDC center alias:Adelaide Bioinformatics Hub|INSDC center name:Adelaide Bioinformatics Hub|INSDC first public:2018 05 11T17:03:03Z|INSDC last update:2018 02 14T06:16:03Z|INSDC status:public|Submitter Id:Young mutant biorep3|common name:zebrafish|sample name:Young mutant biorep3                 NextSeq 500 paired end sequencing ena EXPERIMENT Adelaide Bioinformatics Hub 15 02 2018 04:44:34:534 6 12 psen1K97Gfshet 6mth 10 03 2016 S3 fem RNA seq analysis of whole brains from zebrafish possessing a heterozygous K97fs mutation in psen1 to model familial Alzheimer's disease Total RNA was extracted from whole brains using the mirVana miRNA isolation kit ThermoFisher using the manufacturer's protocol.   RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA NextSeq 500   ERP106721 NextSeq 500 paired end sequencing ENA FIRST PUBLIC:2018 05 11|ENA LAST UPDATE:2018 11 16 12_psen1K97Gfshet_6mth_10_03_2016_S3_fem_R1.fastq.gz 12_psen1K97Gfshet_6mth_10_03_2016_S3_fem_R2.fastq.gz fastq fastq 11485397100.0 38284657.0 ena RUN Adelaide Bioinformatics Hub 15 02 2018 04:44:34:534 6 0:150 1:150 A:3206707597;C:2539306860;G:2721427816;T:3015264084;N:2690743 150 150     3206707597 2539306860 2721427816 3015264084 2690743 ERX2355531 ERS2201739 ERA1210082 Adelaide Bioinformatics Hub|European Nucleotide Archive Adelaide Bioinformatics Hub 2 0.92853 0.92813 0.26757 0.26433 0.68487 0.68903 0.47708 0.47074 150 150 B B biological fallback assumption illumina nextseq unknown random_priming unknown bulk unknown unknown   Australia 2018-02-08 Undetermined Adult Brain Nervous System
8083 8083 ERR2304202 ERX2355530 ERS2201738 ERP106721 PRJEB24858 Zebrafish modelling familialAlzheimer's disease using heterozygous K97fs mutation in locus psen1 ena-STUDY-Adelaide Bioinformatics Hub-08-02-2018-04:47:34:743-1099 Other RNA seq analysis of whole brains from zebrafish possessing a heterozygous K97fs mutation in psen1 to model familial Alzheimer's disease Total RNA was extracted from the whole brains of mutant and wild type zebrafish when they were either 6 mpf young adult or 24 mpf infertile adult. Mutant zebrafish possess a heterozygous K97fs mutation at the endogenous zebrafish psen1 locus while wild type zebrafish do not. ENA FIRST PUBLIC:2018 05 11|ENA LAST UPDATE:2018 02 08     Young mutant biorep2 SAMEA104590456 Adelaide Bioinformatics Hub ENA first public:2018 05 11|ENA last update:2018 02 14|External Id:SAMEA104590456|INSDC center alias:Adelaide Bioinformatics Hub|INSDC center name:Adelaide Bioinformatics Hub|INSDC first public:2018 05 11T17:03:03Z|INSDC last update:2018 02 14T06:16:03Z|INSDC status:public|Submitter Id:Young mutant biorep2|common name:zebrafish|sample name:Young mutant biorep2                 NextSeq 500 paired end sequencing ena EXPERIMENT Adelaide Bioinformatics Hub 15 02 2018 04:44:34:534 5 11 psen1K97Gfshet 6mth 10 03 2016 S2 fem RNA seq analysis of whole brains from zebrafish possessing a heterozygous K97fs mutation in psen1 to model familial Alzheimer's disease Total RNA was extracted from whole brains using the mirVana miRNA isolation kit ThermoFisher using the manufacturer's protocol.   RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA NextSeq 500   ERP106721 NextSeq 500 paired end sequencing ENA FIRST PUBLIC:2018 05 11|ENA LAST UPDATE:2018 11 16 11_psen1K97Gfshet_6mth_10_03_2016_S2_fem_R1.fastq.gz 11_psen1K97Gfshet_6mth_10_03_2016_S2_fem_R2.fastq.gz fastq fastq 13258122000.0 44193740.0 ena RUN Adelaide Bioinformatics Hub 15 02 2018 04:44:34:534 5 0:150 1:150 A:3781076311;C:2868334319;G:3063279426;T:3542309854;N:3122090 150 150     3781076311 2868334319 3063279426 3542309854 3122090 ERX2355530 ERS2201738 ERA1210082 Adelaide Bioinformatics Hub|European Nucleotide Archive Adelaide Bioinformatics Hub 2 0.91552 0.91659 0.32337 0.32168 0.69546 0.698 0.4697 0.47295 150 150 B B biological fallback assumption illumina nextseq unknown random_priming unknown bulk unknown unknown   Australia 2018-02-08 Undetermined Adult Brain Nervous System
8084 8084 ERR2304201 ERX2355529 ERS2201737 ERP106721 PRJEB24858 Zebrafish modelling familialAlzheimer's disease using heterozygous K97fs mutation in locus psen1 ena-STUDY-Adelaide Bioinformatics Hub-08-02-2018-04:47:34:743-1099 Other RNA seq analysis of whole brains from zebrafish possessing a heterozygous K97fs mutation in psen1 to model familial Alzheimer's disease Total RNA was extracted from the whole brains of mutant and wild type zebrafish when they were either 6 mpf young adult or 24 mpf infertile adult. Mutant zebrafish possess a heterozygous K97fs mutation at the endogenous zebrafish psen1 locus while wild type zebrafish do not. ENA FIRST PUBLIC:2018 05 11|ENA LAST UPDATE:2018 02 08     Young mutant biorep1 SAMEA104590455 Adelaide Bioinformatics Hub ENA first public:2018 05 11|ENA last update:2018 02 14|External Id:SAMEA104590455|INSDC center alias:Adelaide Bioinformatics Hub|INSDC center name:Adelaide Bioinformatics Hub|INSDC first public:2018 05 11T17:03:03Z|INSDC last update:2018 02 14T06:16:03Z|INSDC status:public|Submitter Id:Young mutant biorep1|common name:zebrafish|sample name:Young mutant biorep1                 NextSeq 500 paired end sequencing ena EXPERIMENT Adelaide Bioinformatics Hub 15 02 2018 04:44:34:534 4 10 psen1K97Gfshet 6mth 10 03 2016 S1 fem RNA seq analysis of whole brains from zebrafish possessing a heterozygous K97fs mutation in psen1 to model familial Alzheimer's disease Total RNA was extracted from whole brains using the mirVana miRNA isolation kit ThermoFisher using the manufacturer's protocol.   RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA NextSeq 500   ERP106721 NextSeq 500 paired end sequencing ENA FIRST PUBLIC:2018 05 11|ENA LAST UPDATE:2018 11 16 10_psen1K97Gfshet_6mth_10_03_2016_S1_fem_R1.fastq.gz 10_psen1K97Gfshet_6mth_10_03_2016_S1_fem_R2.fastq.gz fastq fastq 11724649800.0 39082166.0 ena RUN Adelaide Bioinformatics Hub 15 02 2018 04:44:34:534 4 0:150 1:150 A:3304100658;C:2560616667;G:2779636286;T:3077545106;N:2751083 150 150     3304100658 2560616667 2779636286 3077545106 2751083 ERX2355529 ERS2201737 ERA1210082 Adelaide Bioinformatics Hub|European Nucleotide Archive Adelaide Bioinformatics Hub 2 0.92121 0.91893 0.28263 0.27928 0.69073 0.6953 0.47174 0.46157 150 150 B B biological fallback assumption illumina nextseq unknown random_priming unknown bulk unknown unknown   Australia 2018-02-08 Undetermined Adult Brain Nervous System
8085 8085 ERR2304200 ERX2355528 ERS2201736 ERP106721 PRJEB24858 Zebrafish modelling familialAlzheimer's disease using heterozygous K97fs mutation in locus psen1 ena-STUDY-Adelaide Bioinformatics Hub-08-02-2018-04:47:34:743-1099 Other RNA seq analysis of whole brains from zebrafish possessing a heterozygous K97fs mutation in psen1 to model familial Alzheimer's disease Total RNA was extracted from the whole brains of mutant and wild type zebrafish when they were either 6 mpf young adult or 24 mpf infertile adult. Mutant zebrafish possess a heterozygous K97fs mutation at the endogenous zebrafish psen1 locus while wild type zebrafish do not. ENA FIRST PUBLIC:2018 05 11|ENA LAST UPDATE:2018 02 08     Young wild type biorep3 SAMEA104590454 Adelaide Bioinformatics Hub ENA first public:2018 05 11|ENA last update:2018 02 14|External Id:SAMEA104590454|INSDC center alias:Adelaide Bioinformatics Hub|INSDC center name:Adelaide Bioinformatics Hub|INSDC first public:2018 05 11T17:03:03Z|INSDC last update:2018 02 14T06:16:03Z|INSDC status:public|Submitter Id:Young wild type biorep3|common name:zebrafish|sample name:Young wild type biorep3                 NextSeq 500 paired end sequencing ena EXPERIMENT Adelaide Bioinformatics Hub 15 02 2018 04:44:34:534 3 6 non mutant K97Gfs 6mth 10 03 2016 S3 fem RNA seq analysis of whole brains from zebrafish possessing a heterozygous K97fs mutation in psen1 to model familial Alzheimer's disease Total RNA was extracted from whole brains using the mirVana miRNA isolation kit ThermoFisher using the manufacturer's protocol.   RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA NextSeq 500   ERP106721 NextSeq 500 paired end sequencing ENA FIRST PUBLIC:2018 05 11|ENA LAST UPDATE:2018 11 16 6_non_mutant_K97Gfs_6mth_10_03_2016_S3_fem_R1.fastq.gz 6_non_mutant_K97Gfs_6mth_10_03_2016_S3_fem_R2.fastq.gz fastq fastq 24923212200.0 83077374.0 ena RUN Adelaide Bioinformatics Hub 15 02 2018 04:44:34:534 3 0:150 1:150 A:7077378299;C:5398402396;G:5838059014;T:6604505033;N:4867458 150 150     7077378299 5398402396 5838059014 6604505033 4867458 ERX2355528 ERS2201736 ERA1210082 Adelaide Bioinformatics Hub|European Nucleotide Archive Adelaide Bioinformatics Hub 2 0.91973 0.92144 0.29148 0.29015 0.69587 0.69994 0.46145 0.47047 150 150 B B biological fallback assumption illumina nextseq unknown random_priming unknown bulk unknown unknown   Australia 2018-02-08 Undetermined Adult Brain Nervous System
8086 8086 ERR2304199 ERX2355527 ERS2201735 ERP106721 PRJEB24858 Zebrafish modelling familialAlzheimer's disease using heterozygous K97fs mutation in locus psen1 ena-STUDY-Adelaide Bioinformatics Hub-08-02-2018-04:47:34:743-1099 Other RNA seq analysis of whole brains from zebrafish possessing a heterozygous K97fs mutation in psen1 to model familial Alzheimer's disease Total RNA was extracted from the whole brains of mutant and wild type zebrafish when they were either 6 mpf young adult or 24 mpf infertile adult. Mutant zebrafish possess a heterozygous K97fs mutation at the endogenous zebrafish psen1 locus while wild type zebrafish do not. ENA FIRST PUBLIC:2018 05 11|ENA LAST UPDATE:2018 02 08     Young wild type biorep2 SAMEA104590453 Adelaide Bioinformatics Hub ENA first public:2018 05 11|ENA last update:2018 02 14|External Id:SAMEA104590453|INSDC center alias:Adelaide Bioinformatics Hub|INSDC center name:Adelaide Bioinformatics Hub|INSDC first public:2018 05 11T17:03:03Z|INSDC last update:2018 02 14T06:16:03Z|INSDC status:public|Submitter Id:Young wild type biorep2|common name:zebrafish|sample name:Young wild type biorep2                 NextSeq 500 paired end sequencing ena EXPERIMENT Adelaide Bioinformatics Hub 15 02 2018 04:44:34:534 2 5 non mutant K97Gfs 6mth 10 03 2016 S2 fem RNA seq analysis of whole brains from zebrafish possessing a heterozygous K97fs mutation in psen1 to model familial Alzheimer's disease Total RNA was extracted from whole brains using the mirVana miRNA isolation kit ThermoFisher using the manufacturer's protocol.   RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA NextSeq 500   ERP106721 NextSeq 500 paired end sequencing ENA FIRST PUBLIC:2018 05 11|ENA LAST UPDATE:2018 11 16 5_non_mutant_K97Gfs_6mth_10_03_2016_S2_fem_R1.fastq.gz 5_non_mutant_K97Gfs_6mth_10_03_2016_S2_fem_R2.fastq.gz fastq fastq 7840317153.0 39006553.0 ena RUN Adelaide Bioinformatics Hub 15 02 2018 04:44:34:534 2 0:101 1:100 A:2200490653;C:1718458832;G:1730278863;T:2188900320;N:2188485 101 100     2200490653 1718458832 1730278863 2188900320 2188485 ERX2355527 ERS2201735 ERA1210082 Adelaide Bioinformatics Hub|European Nucleotide Archive Adelaide Bioinformatics Hub 2 0.91783 0.91983 0.32092 0.32105 0.67714 0.67691 0.47312 0.47481 101 100 B B biological fallback assumption illumina nextseq unknown random_priming unknown bulk unknown unknown   Australia 2018-02-08 Undetermined Adult Brain Nervous System
8087 8087 ERR2304198 ERX2355526 ERS2201734 ERP106721 PRJEB24858 Zebrafish modelling familialAlzheimer's disease using heterozygous K97fs mutation in locus psen1 ena-STUDY-Adelaide Bioinformatics Hub-08-02-2018-04:47:34:743-1099 Other RNA seq analysis of whole brains from zebrafish possessing a heterozygous K97fs mutation in psen1 to model familial Alzheimer's disease Total RNA was extracted from the whole brains of mutant and wild type zebrafish when they were either 6 mpf young adult or 24 mpf infertile adult. Mutant zebrafish possess a heterozygous K97fs mutation at the endogenous zebrafish psen1 locus while wild type zebrafish do not. ENA FIRST PUBLIC:2018 05 11|ENA LAST UPDATE:2018 02 08     Young wild type biorep1 SAMEA104590452 Adelaide Bioinformatics Hub ENA first public:2018 05 11|ENA last update:2018 02 14|External Id:SAMEA104590452|INSDC center alias:Adelaide Bioinformatics Hub|INSDC center name:Adelaide Bioinformatics Hub|INSDC first public:2018 05 11T17:03:03Z|INSDC last update:2018 02 14T06:16:03Z|INSDC status:public|Submitter Id:Young wild type biorep1|common name:zebrafish|sample name:Young wild type biorep1                 NextSeq 500 paired end sequencing ena EXPERIMENT Adelaide Bioinformatics Hub 15 02 2018 04:44:34:534 1 4 non mutant K97Gfs 6mth 10 03 2016 S1 fem RNA seq analysis of whole brains from zebrafish possessing a heterozygous K97fs mutation in psen1 to model familial Alzheimer's disease Total RNA was extracted from whole brains using the mirVana miRNA isolation kit ThermoFisher using the manufacturer's protocol.   RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA NextSeq 500   ERP106721 NextSeq 500 paired end sequencing ENA FIRST PUBLIC:2018 05 11|ENA LAST UPDATE:2018 11 16 4_non_mutant_K97Gfs_6mth_10_03_2016_S1_fem_R1.fastq.gz 4_non_mutant_K97Gfs_6mth_10_03_2016_S1_fem_R2.fastq.gz fastq fastq 13910901600.0 46369672.0 ena RUN Adelaide Bioinformatics Hub 15 02 2018 04:44:34:534 1 0:150 1:150 A:3994738757;C:2957179645;G:3191379676;T:3764325893;N:3277629 150 150     3994738757 2957179645 3191379676 3764325893 3277629 ERX2355526 ERS2201734 ERA1210082 Adelaide Bioinformatics Hub|European Nucleotide Archive Adelaide Bioinformatics Hub 2 0.91399 0.9166 0.3202 0.31818 0.6942 0.698 0.46902 0.47111 150 150 B B biological fallback assumption illumina nextseq unknown random_priming unknown bulk unknown unknown   Australia 2018-02-08 Undetermined Adult Brain Nervous System
28496 28496 SRR26321412 SRX22029502 SRS19102283 SRP465132 PRJNA1025903 Zebrafish cryoinjury regeneration Raw sequence reads PRJNA1025903 Whole Genome Sequencing Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury       3dpci 1 R27   strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal                 RNA seq of zebrafish liver 3 dpci R27 R27 ham and injured livers at 1 3 and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition 3 adult zebrafish livers were pooled per tube discriminating between the injured border and liver tissue from other lobes. Finally 3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice with a plastic pestle to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500 with paired end 75bp reads to a depth of 15M reads per sample.     RNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA NextSeq 500   SRP465132     R27.fastq fastq 23400.0 312.0 R27.fastq 0:75 A:7949;C:4612;G:4730;T:6100;N:9 75       7949 4612 4730 6100 9 SRX22029502 SRS19102283 SRA1727674 Peter MacCallum Cancer Centre|Organogenesis and Cancer Peter MacCallum Cancer Centre 1 0.89642   0.06772   0.99827   0.75   75   B   usable mapping rate illumina nextseq unknown random_priming unknown bulk bulk bulk   Australia 2023-10-11 Adult Adult Liver Liver and Biliary System
28497 28497 SRR26321413 SRX22029501 SRS19102284 SRP465132 PRJNA1025903 Zebrafish cryoinjury regeneration Raw sequence reads PRJNA1025903 Whole Genome Sequencing Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury       1dpci 4 R22   strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal                 RNA seq of zebrafish liver 1 dpci R22 R22 ham and injured livers at 1 3 and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition 3 adult zebrafish livers were pooled per tube discriminating between the injured border and liver tissue from other lobes. Finally 3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice with a plastic pestle to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500 with paired end 75bp reads to a depth of 15M reads per sample.     RNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA NextSeq 500   SRP465132     R22.fastq fastq 23400.0 312.0 R22.fastq 0:75 A:7470;C:4460;G:5063;T:6404;N:3 75       7470 4460 5063 6404 3 SRX22029501 SRS19102284 SRA1727674 Peter MacCallum Cancer Centre|Organogenesis and Cancer Peter MacCallum Cancer Centre 1 0.87073   0.12167   0.99801   0.73157   75   B   usable mapping rate illumina nextseq unknown random_priming unknown bulk bulk bulk   Australia 2023-10-11 Adult Adult Liver Liver and Biliary System
28498 28498 SRR26321414 SRX22029500 SRS19102281 SRP465132 PRJNA1025903 Zebrafish cryoinjury regeneration Raw sequence reads PRJNA1025903 Whole Genome Sequencing Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury       R21 R21   strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal                 RNA seq of zebrafish liver 1 dpci R21 R21 ham and injured livers at 1 3 and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition 3 adult zebrafish livers were pooled per tube discriminating between the injured border and liver tissue from other lobes. Finally 3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice with a plastic pestle to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500 with paired end 75bp reads to a depth of 15M reads per sample.     RNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA NextSeq 500   SRP465132     R21.fastq fastq 23400.0 312.0 R21.fastq 0:75 A:7540;C:4349;G:4857;T:6646;N:8 75       7540 4349 4857 6646 8 SRX22029500 SRS19102281 SRA1727674 Peter MacCallum Cancer Centre|Organogenesis and Cancer Peter MacCallum Cancer Centre 1 0.8839   0.04494   0.99768   0.72769   75   B   usable mapping rate illumina nextseq unknown random_priming unknown bulk bulk bulk   Australia 2023-10-11 Adult Adult Liver Liver and Biliary System
28499 28499 SRR26321415 SRX22029499 SRS19102282 SRP465132 PRJNA1025903 Zebrafish cryoinjury regeneration Raw sequence reads PRJNA1025903 Whole Genome Sequencing Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury       1dpci 2 R18   strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal                 RNA seq of zebrafish liver 1 dpci R18 R18 ham and injured livers at 1 3 and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition 3 adult zebrafish livers were pooled per tube discriminating between the injured border and liver tissue from other lobes. Finally 3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice with a plastic pestle to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500 with paired end 75bp reads to a depth of 15M reads per sample.     RNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA NextSeq 500   SRP465132     R18.fastq fastq 23400.0 312.0 R18.fastq 0:75 A:7380;C:4430;G:5069;T:6518;N:3 75       7380 4430 5069 6518 3 SRX22029499 SRS19102282 SRA1727674 Peter MacCallum Cancer Centre|Organogenesis and Cancer Peter MacCallum Cancer Centre 1 0.87259   0.11196   0.99784   0.69791   75   B   usable mapping rate illumina nextseq unknown random_priming unknown bulk bulk bulk   Australia 2023-10-11 Adult Adult Liver Liver and Biliary System
28500 28500 SRR26321416 SRX22029498 SRS19102280 SRP465132 PRJNA1025903 Zebrafish cryoinjury regeneration Raw sequence reads PRJNA1025903 Whole Genome Sequencing Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury       1dpci 1 R17   strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal                 RNA seq of zebrafish liver 1 dpci R17 R17 ham and injured livers at 1 3 and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition 3 adult zebrafish livers were pooled per tube discriminating between the injured border and liver tissue from other lobes. Finally 3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice with a plastic pestle to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500 with paired end 75bp reads to a depth of 15M reads per sample.     RNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA NextSeq 500   SRP465132     R17.fastq fastq 23400.0 312.0 R17.fastq 0:75 A:7322;C:4455;G:5111;T:6507;N:5 75       7322 4455 5111 6507 5 SRX22029498 SRS19102280 SRA1727674 Peter MacCallum Cancer Centre|Organogenesis and Cancer Peter MacCallum Cancer Centre 1 0.90439   0.12749   0.99813   0.71052   75   B   usable mapping rate illumina nextseq unknown random_priming unknown bulk bulk bulk   Australia 2023-10-11 Adult Adult Liver Liver and Biliary System
28501 28501 SRR26321417 SRX22029497 SRS19102279 SRP465132 PRJNA1025903 Zebrafish cryoinjury regeneration Raw sequence reads PRJNA1025903 Whole Genome Sequencing Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury       SHAM 5 R1   strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal                 RNA seq of zebrafish liver sham R1 R1 ham and injured livers at 1 3 and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition 3 adult zebrafish livers were pooled per tube discriminating between the injured border and liver tissue from other lobes. Finally 3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice with a plastic pestle to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500 with paired end 75bp reads to a depth of 15M reads per sample.     RNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA NextSeq 500   SRP465132     R1.fastq fastq 23400.0 312.0 R1.fastq 0:75 A:7934;C:4560;G:4922;T:5980;N:4 75       7934 4560 4922 5980 4 SRX22029497 SRS19102279 SRA1727674 Peter MacCallum Cancer Centre|Organogenesis and Cancer Peter MacCallum Cancer Centre 1 0.87045   0.10526   0.99805   0.71978   75   B   usable mapping rate illumina nextseq unknown random_priming unknown bulk bulk bulk   Australia 2023-10-11 Adult Adult Liver Liver and Biliary System
28502 28502 SRR26321418 SRX22029496 SRS19102277 SRP465132 PRJNA1025903 Zebrafish cryoinjury regeneration Raw sequence reads PRJNA1025903 Whole Genome Sequencing Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury       SHAM 4 R64   strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal                 RNA seq of zebrafish liver sham R64 R64 ham and injured livers at 1 3 and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition 3 adult zebrafish livers were pooled per tube discriminating between the injured border and liver tissue from other lobes. Finally 3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice with a plastic pestle to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500 with paired end 75bp reads to a depth of 15M reads per sample.     RNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA NextSeq 500   SRP465132     R64.fastq fastq 23400.0 312.0 R64.fastq 0:75 A:7844;C:4626;G:4804;T:6126;N:0 75       7844 4626 4804 6126 0 SRX22029496 SRS19102277 SRA1727674 Peter MacCallum Cancer Centre|Organogenesis and Cancer Peter MacCallum Cancer Centre 1 0.90119   0.07509   0.99839   0.8   75   B   usable mapping rate illumina nextseq unknown random_priming unknown bulk bulk bulk   Australia 2023-10-11 Adult Adult Liver Liver and Biliary System
28503 28503 SRR26321419 SRX22029495 SRS19102278 SRP465132 PRJNA1025903 Zebrafish cryoinjury regeneration Raw sequence reads PRJNA1025903 Whole Genome Sequencing Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury       SHAM 3 R61   strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal                 RNA seq of zebrafish liver sham R61 R61 ham and injured livers at 1 3 and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition 3 adult zebrafish livers were pooled per tube discriminating between the injured border and liver tissue from other lobes. Finally 3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice with a plastic pestle to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500 with paired end 75bp reads to a depth of 15M reads per sample.     RNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA NextSeq 500   SRP465132     R61.fastq fastq 23400.0 312.0 R61.fastq 0:75 A:7454;C:4556;G:4960;T:6425;N:5 75       7454 4556 4960 6425 5 SRX22029495 SRS19102278 SRA1727674 Peter MacCallum Cancer Centre|Organogenesis and Cancer Peter MacCallum Cancer Centre 1 0.89098   0.06015   0.99813   0.77102   75   B   usable mapping rate illumina nextseq unknown random_priming unknown bulk bulk bulk   Australia 2023-10-11 Adult Adult Liver Liver and Biliary System
28504 28504 SRR26321420 SRX22029494 SRS19102276 SRP465132 PRJNA1025903 Zebrafish cryoinjury regeneration Raw sequence reads PRJNA1025903 Whole Genome Sequencing Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury       7dpci 4 30   strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal                 RNA seq of zebrafish liver 7 dpci 30 30 ham and injured livers at 1 3 and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition 3 adult zebrafish livers were pooled per tube discriminating between the injured border and liver tissue from other lobes. Finally 3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice with a plastic pestle to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500 with paired end 75bp reads to a depth of 15M reads per sample.     RNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA NextSeq 500   SRP465132     30.fastq fastq 23400.0 312.0 30.fastq 0:75 A:7732;C:4528;G:5150;T:5987;N:3 75       7732 4528 5150 5987 3 SRX22029494 SRS19102276 SRA1727674 Peter MacCallum Cancer Centre|Organogenesis and Cancer Peter MacCallum Cancer Centre 1 0.88447   0.13147   0.99772   0.71584   75   B   usable mapping rate illumina nextseq unknown random_priming unknown bulk bulk bulk   Australia 2023-10-11 Adult Adult Liver Liver and Biliary System
28505 28505 SRR26321421 SRX22029493 SRS19102275 SRP465132 PRJNA1025903 Zebrafish cryoinjury regeneration Raw sequence reads PRJNA1025903 Whole Genome Sequencing Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury       R11 R11   strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal                 RNA seq of zebrafish liver 7 dpci R11 R11 ham and injured livers at 1 3 and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition 3 adult zebrafish livers were pooled per tube discriminating between the injured border and liver tissue from other lobes. Finally 3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice with a plastic pestle to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500 with paired end 75bp reads to a depth of 15M reads per sample.     RNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA NextSeq 500   SRP465132     R11.fastq fastq 23400.0 312.0 R11.fastq 0:75 A:7818;C:4507;G:5107;T:5956;N:12 75       7818 4507 5107 5956 12 SRX22029493 SRS19102275 SRA1727674 Peter MacCallum Cancer Centre|Organogenesis and Cancer Peter MacCallum Cancer Centre 1 0.89345   0.11475   0.99847   0.82258   75   B   usable mapping rate illumina nextseq unknown random_priming unknown bulk bulk bulk   Australia 2023-10-11 Adult Adult Liver Liver and Biliary System
28506 28506 SRR26321422 SRX22029492 SRS19102274 SRP465132 PRJNA1025903 Zebrafish cryoinjury regeneration Raw sequence reads PRJNA1025903 Whole Genome Sequencing Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury       7dpci 2 31   strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:liver|BioSampleModel:Model organism or animal                 RNA seq of zebrafish liver 7 dpci 31 31 ham and injured livers at 1 3 and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition 3 adult zebrafish livers were pooled per tube discriminating between the injured border and liver tissue from other lobes. Finally 3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice with a plastic pestle to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500 with paired end 75bp reads to a depth of 15M reads per sample.     RNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA NextSeq 500   SRP465132     31.fastq fastq 23400.0 312.0 31.fastq 0:75 A:7470;C:4619;G:4802;T:6504;N:5 75       7470 4619 4802 6504 5 SRX22029492 SRS19102274 SRA1727674 Peter MacCallum Cancer Centre|Organogenesis and Cancer Peter MacCallum Cancer Centre 1 0.87699   0.11111   0.99829   0.78918   75   B   usable mapping rate illumina nextseq unknown random_priming unknown bulk bulk bulk   Australia 2023-10-11 Adult Adult Liver Liver and Biliary System
28507 28507 SRR26321423 SRX22029491 SRS19102273 SRP465132 PRJNA1025903 Zebrafish cryoinjury regeneration Raw sequence reads PRJNA1025903 Whole Genome Sequencing Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury       7dpci 1 R9   strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal                 RNA seq of zebrafish liver 7 dpci R9 R9 ham and injured livers at 1 3 and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition 3 adult zebrafish livers were pooled per tube discriminating between the injured border and liver tissue from other lobes. Finally 3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice with a plastic pestle to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500 with paired end 75bp reads to a depth of 15M reads per sample.     RNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA NextSeq 500   SRP465132     R9.fastq fastq 23400.0 312.0 R9.fastq 0:75 A:8130;C:4537;G:4809;T:5917;N:7 75       8130 4537 4809 5917 7 SRX22029491 SRS19102273 SRA1727674 Peter MacCallum Cancer Centre|Organogenesis and Cancer Peter MacCallum Cancer Centre 1 0.83588   0.05725   0.99801   0.68586   75   B   usable mapping rate illumina nextseq unknown random_priming unknown bulk bulk bulk   Australia 2023-10-11 Adult Adult Liver Liver and Biliary System
28508 28508 SRR26321424 SRX22029490 SRS19102272 SRP465132 PRJNA1025903 Zebrafish cryoinjury regeneration Raw sequence reads PRJNA1025903 Whole Genome Sequencing Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury       3dpci 4 R33   strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal                 RNA seq of zebrafish liver 3 dpci R33 R33 ham and injured livers at 1 3 and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition 3 adult zebrafish livers were pooled per tube discriminating between the injured border and liver tissue from other lobes. Finally 3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice with a plastic pestle to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500 with paired end 75bp reads to a depth of 15M reads per sample.     RNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA NextSeq 500   SRP465132     R33.fastq fastq 23400.0 312.0 R33.fastq 0:75 A:7745;C:4421;G:4867;T:6360;N:7 75       7745 4421 4867 6360 7 SRX22029490 SRS19102272 SRA1727674 Peter MacCallum Cancer Centre|Organogenesis and Cancer Peter MacCallum Cancer Centre 1 0.87259   0.07335   0.99805   0.71428   75   B   usable mapping rate illumina nextseq unknown random_priming unknown bulk bulk bulk   Australia 2023-10-11 Adult Adult Liver Liver and Biliary System
28509 28509 SRR26321425 SRX22029489 SRS19102271 SRP465132 PRJNA1025903 Zebrafish cryoinjury regeneration Raw sequence reads PRJNA1025903 Whole Genome Sequencing Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury       3dpci 3 R31   strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal                 RNA seq of zebrafish liver 3 dpci R31 R31 ham and injured livers at 1 3 and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition 3 adult zebrafish livers were pooled per tube discriminating between the injured border and liver tissue from other lobes. Finally 3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice with a plastic pestle to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500 with paired end 75bp reads to a depth of 15M reads per sample.     RNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA NextSeq 500   SRP465132     R31.fastq fastq 23400.0 312.0 R31.fastq 0:75 A:7441;C:4483;G:5163;T:6313;N:0 75       7441 4483 5163 6313 0 SRX22029489 SRS19102271 SRA1727674 Peter MacCallum Cancer Centre|Organogenesis and Cancer Peter MacCallum Cancer Centre 1 0.9   0.05925   0.9977   0.68325   75   B   usable mapping rate illumina nextseq unknown random_priming unknown bulk bulk bulk   Australia 2023-10-11 Adult Adult Liver Liver and Biliary System
28510 28510 SRR26321426 SRX22029488 SRS19102270 SRP465132 PRJNA1025903 Zebrafish cryoinjury regeneration Raw sequence reads PRJNA1025903 Whole Genome Sequencing Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury       3dpci 2 R29   strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal                 RNA seq of zebrafish liver 3 dpci R29 R29 ham and injured livers at 1 3 and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition 3 adult zebrafish livers were pooled per tube discriminating between the injured border and liver tissue from other lobes. Finally 3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice with a plastic pestle to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500 with paired end 75bp reads to a depth of 15M reads per sample.     RNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA NextSeq 500   SRP465132     R29.fastq fastq 23400.0 312.0 R29.fastq 0:75 A:7379;C:4698;G:5166;T:6156;N:1 75       7379 4698 5166 6156 1 SRX22029488 SRS19102270 SRA1727674 Peter MacCallum Cancer Centre|Organogenesis and Cancer Peter MacCallum Cancer Centre 1 0.91016   0.05859   0.99797   0.74528   75   B   usable mapping rate illumina nextseq unknown random_priming unknown bulk bulk bulk   Australia 2023-10-11 Adult Adult Liver Liver and Biliary System
28511 28511 SRR26321427 SRX22029487 SRS19102269 SRP465132 PRJNA1025903 Zebrafish cryoinjury regeneration Raw sequence reads PRJNA1025903 Whole Genome Sequencing Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury       SHAM 2 R62   strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia|sex:male|tissue:Liver|BioSampleModel:Model organism or animal                 RNA seq of zebrafish liver sham R62 R62 ham and injured livers at 1 3 and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition 3 adult zebrafish livers were pooled per tube discriminating between the injured border and liver tissue from other lobes. Finally 3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice with a plastic pestle to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500 with paired end 75bp reads to a depth of 15M reads per sample.     RNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA NextSeq 500   SRP465132     R62.fastq fastq 23400.0 312.0 R62.fastq 0:75 A:7383;C:4566;G:4713;T:6728;N:10 75       7383 4566 4713 6728 10 SRX22029487 SRS19102269 SRA1727674 Peter MacCallum Cancer Centre|Organogenesis and Cancer Peter MacCallum Cancer Centre 1 0.91571   0.05363   0.99835   0.77674   75   B   usable mapping rate illumina nextseq unknown random_priming unknown bulk bulk bulk   Australia 2023-10-11 Adult Adult Liver Liver and Biliary System
28512 28512 SRR26321428 SRX22029486 SRS19102268 SRP465132 PRJNA1025903 Zebrafish cryoinjury regeneration Raw sequence reads PRJNA1025903 Whole Genome Sequencing Bulk RNA seq collection of adult zebrafish livers at different stages of regeneration upon liver croyinjury     Replicate 1 for SHAM SHAM 1 R63   strain:AB|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:9 month|dev stage:maturity|collection date:2021 07 24|geo loc name:Australia: Melbourne|sex:male|tissue:Liver|BioSampleModel:Model organism or animal                 RNA seq of zebrafish liver sham R63 R63 ham and injured livers at 1 3 and 7 dpci were phenotyped under the fluorescent stereomicroscope NSZ 606 Binocular Zoom fitted with a NightSea SFA light base to confirm the presence of insult upon cryoinjury. In addition 3 adult zebrafish livers were pooled per tube discriminating between the injured border and liver tissue from other lobes. Finally 3 replicates of 3 pooled livers were used for library preparation. Livers were transferred to a final volume of 300uL of cold TRIzolTM Thermo Fisher Scientific per tube on ice. Livers were homogenized using the mechanical homogenizer for 30s on ice with a plastic pestle to ensure fine homogenization. RNA was extracted according to the manufacturer guidelines Direct zolTM RNA MiniPrep kit Zymo Research. RNA quality was confirmed using an Agilent 4200 Tapestation System. Libraries were sequenced in Illumina NextSeq 500 with paired end 75bp reads to a depth of 15M reads per sample.     RNA-Seq TRANSCRIPTOMIC PCR SINGLE ILLUMINA NextSeq 500   SRP465132     R63.fastq fastq 23400.0 312.0 R63.fastq 0:75 A:7516;C:4606;G:4765;T:6508;N:5 75       7516 4606 4765 6508 5 SRX22029486 SRS19102268 SRA1727674 Peter MacCallum Cancer Centre|Organogenesis and Cancer Peter MacCallum Cancer Centre 1 0.90385   0.0423   0.99805   0.72429   75   B   usable mapping rate illumina nextseq unknown random_priming unknown bulk bulk bulk   Australia 2023-10-11 Adult Adult Liver Liver and Biliary System
28513 28513 SRR31643557 SRX27006657 SRS23471106 SRP467901 PRJNA1026724 vertebrate lungs PRJNA1026724 Other We provide comprehensive datasets including RNA Seq and single cell RNA sequencing scRAN seq of multiple tissues for white spotted bamboo shark scRNA seq of multiple tissues of the African lungfish and Senegal bichir genome of the bearded dragon scRAN seq of African bullfrog lung and central bearded dragon lung and H3k27ac and H3k4me1 CUT&Tag sequencing data of chicken embryonic lungs from stage E9 to study the origin and evelution of vertebrate lungs.   pubmed:39953253     zebrafish   strain:Cyprinidae|age:adult|collection date:2021 09|geo loc name:China: Wuhan city Wuhan Province|sex:not collected|tissue:swim bladder|BioSampleModel:Model organism or animal                 scRNA Seq of zebrafish :swim blader zebrafish swimbladder zebrafish swimbladder sequencing for single cell gene expression     RNA-Seq TRANSCRIPTOMIC SINGLE CELL PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP467901     Dr_Sb-3_S1_L003_R2_001.fastq.gz Dr_Sb-3_S1_L003_R1_001.fastq.gz Dr_Sb-2_S1_L001_R2_001.fastq.gz Dr_Sb-2_S1_L001_R1_001.fastq.gz Dr_Sb-1_S1_L001_R2_001.fastq.gz Dr_Sb-1_S1_L001_R1_001.fastq.gz fastq fastq fastq fastq fastq fastq     Dr Sb 1 S1 L001 R1 001.fastq.gz                       SRX27006657   SRA2029673 Northwestern Polytechnical University|School of Ecology and Environment Northwestern Polytechnical University                             illumina novaseq_era unknown random_priming unknown sc single_cell_generic generic-scrnaseq-only   China 2024-12-08 Adult Adult Swim Bladder Swim Bladder
29641 29641 SRR27397714 SRX23073965 SRS20033317 SRP480899 PRJNA1060279 EPIFISH PRJNA1060279 Other Epigenetic changes in fish during domestication       RRBS library10 PG2   strain:ab|age:adult|collection date:2023 02 02|geo loc name:Italy|sex:male|tissue:Muscle|Source materail identifiers:day 10|BioSampleModel:Model organism or animal                 RNA seq of danio rerio RRBS10 RRBS10 Library preparation kit used Zymo Seq RRBS Library Kit     Bisulfite-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP480899     PG2_L7_1.fq.gz PG2_L7_2.fq.gz fastq fastq 981695400.0 3272318.0 PG2 L7 1.fq.gz 0:150 1:150 A:253124715;C:152724975;G:341105704;T:234698202;N:41804 150 150     253124715 152724975 341105704 234698202 41804 SRX23073965 SRS20033317 SRA1777947 Nord University|Bioscience and Aquaculture Nord University 2 0.0164 0.00047 0.01505 0.00036 0.9961 0.99965 0.58102 0.47058 150 150 T T mates < 9% mapping rate illumina novaseq_era unknown random_priming unknown bulk unknown unknown   Norway 2024-01-02 Adult Adult Muscle Muscular System
29642 29642 SRR27397715 SRX23073964 SRS20033316 SRP480899 PRJNA1060279 EPIFISH PRJNA1060279 Other Epigenetic changes in fish during domestication       RRBS library9 PG1   strain:ab|age:adult|collection date:2023 02 02|geo loc name:Italy|sex:male|tissue:Muscle|Source materail identifiers:day 9|BioSampleModel:Model organism or animal                 RNA seq of danio rerio RRBS9 RRBS9 Library preparation kit used Zymo Seq RRBS Library Kit     Bisulfite-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP480899     PG1_L7_1.fq.gz PG1_L7_2.fq.gz fastq fastq 1157067600.0 3856892.0 PG1 L7 1.fq.gz 0:150 1:150 A:278308283;C:162228777;G:432676687;T:283803806;N:50047 150 150     278308283 162228777 432676687 283803806 50047 SRX23073964 SRS20033316 SRA1777947 Nord University|Bioscience and Aquaculture Nord University 2 0.02347 0.02319 0.02188 0.02162 0.99517 0.99519 0.50342 0.51027 150 150 T T mates < 9% mapping rate illumina novaseq_era unknown random_priming unknown bulk unknown unknown   Norway 2024-01-02 Adult Adult Muscle Muscular System
29643 29643 SRR27397716 SRX23073963 SRS20033315 SRP480899 PRJNA1060279 EPIFISH PRJNA1060279 Other Epigenetic changes in fish during domestication       RRBS library8 LG4   strain:ab|age:adult|collection date:2023 02 02|geo loc name:Italy|sex:male|tissue:Muscle|Source materail identifiers:day 8|BioSampleModel:Model organism or animal                 RNA seq of danio rerio RRBS8 RRBS8 Library preparation kit used Zymo Seq RRBS Library Kit     Bisulfite-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP480899     LG4_L7_1.fq.gz LG4_L7_2.fq.gz fastq fastq 1080684300.0 3602281.0 LG4 L7 1.fq.gz 0:150 1:150 A:270759422;C:159278390;G:387693215;T:262907381;N:45892 150 150     270759422 159278390 387693215 262907381 45892 SRX23073963 SRS20033315 SRA1777947 Nord University|Bioscience and Aquaculture Nord University 2 0.01698 0.00033 0.01593 0.00026 0.99675 0.99979 0.4974 0.2 150 150 T T mates < 9% mapping rate illumina novaseq_era unknown random_priming unknown bulk unknown unknown   Norway 2024-01-02 Adult Adult Muscle Muscular System
29644 29644 SRR27397717 SRX23073962 SRS20033314 SRP480899 PRJNA1060279 EPIFISH PRJNA1060279 Other Epigenetic changes in fish during domestication       RRBS library7 LG3   strain:ab|age:adult|collection date:2023 02 02|geo loc name:Italy|sex:male|tissue:Muscle|Source materail identifiers:day 7|BioSampleModel:Model organism or animal                 RNA seq of danio rerio RRBS7 RRBS7 Library preparation kit used Zymo Seq RRBS Library Kit     Bisulfite-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP480899     LG3_L7_1.fq.gz LG3_L7_2.fq.gz fastq fastq 1223063700.0 4076879.0 LG3 L7 1.fq.gz 0:150 1:150 A:301167012;C:182106743;G:443329321;T:296409064;N:51560 150 150     301167012 182106743 443329321 296409064 51560 SRX23073962 SRS20033314 SRA1777947 Nord University|Bioscience and Aquaculture Nord University 2 0.01787 0.01759 0.01644 0.01622 0.99545 0.99582 0.56826 0.56126 150 150 T T mates < 9% mapping rate illumina novaseq_era unknown random_priming unknown bulk unknown unknown   Norway 2024-01-02 Adult Adult Muscle Muscular System
29645 29645 SRR27397718 SRX23073961 SRS20033313 SRP480899 PRJNA1060279 EPIFISH PRJNA1060279 Other Epigenetic changes in fish during domestication       RRBS library6 LG2   strain:ab|age:adult|collection date:2023 02 07|geo loc name:Italy|sex:male|tissue:Muscle|Source materail identifiers:day 6|BioSampleModel:Model organism or animal                 RNA seq of danio rerio RRBS6 RRBS6 Library preparation kit used Zymo Seq RRBS Library Kit     Bisulfite-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP480899     LG2_L7_1.fq.gz LG2_L7_2.fq.gz fastq fastq 1188600300.0 3962001.0 LG2 L7 1.fq.gz 0:150 1:150 A:294477343;C:172669379;G:418732939;T:302669966;N:50673 150 150     294477343 172669379 418732939 302669966 50673 SRX23073961 SRS20033313 SRA1777947 Nord University|Bioscience and Aquaculture Nord University 2 0.0205 0.02042 0.01903 0.01894 0.99584 0.99577 0.51685 0.51824 150 150 T T mates < 9% mapping rate illumina novaseq_era unknown random_priming unknown bulk unknown unknown   Norway 2024-01-02 Adult Adult Muscle Muscular System
29646 29646 SRR27397719 SRX23073960 SRS20033312 SRP480899 PRJNA1060279 EPIFISH PRJNA1060279 Other Epigenetic changes in fish during domestication       RRBS library5 LG1   strain:ab|age:adult|collection date:2023 02 06|geo loc name:Italy|sex:male|tissue:Muscle|Source materail identifiers:day 5|BioSampleModel:Model organism or animal                 RNA seq of danio rerio RRBS5 RRBS5 Library preparation kit used Zymo Seq RRBS Library Kit     Bisulfite-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP480899     LG1_L7_1.fq.gz LG1_L7_2.fq.gz fastq fastq 1048183200.0 3493944.0 LG1 L7 1.fq.gz 0:150 1:150 A:260330612;C:163890192;G:372783427;T:251133569;N:45400 150 150     260330612 163890192 372783427 251133569 45400 SRX23073960 SRS20033312 SRA1777947 Nord University|Bioscience and Aquaculture Nord University 2 0.01999 0.00059 0.01851 0.00045 0.99563 0.99961 0.49816 0.36842 150 150 T T mates < 9% mapping rate illumina novaseq_era unknown random_priming unknown bulk unknown unknown   Norway 2024-01-02 Adult Adult Muscle Muscular System
29647 29647 SRR27397720 SRX23073959 SRS20033311 SRP480899 PRJNA1060279 EPIFISH PRJNA1060279 Other Epigenetic changes in fish during domestication       RRBS library4 CG4   strain:ab|age:adult|collection date:2023 02 05|geo loc name:Italy|sex:male|tissue:Muscle|Source materail identifiers:day 4|BioSampleModel:Model organism or animal                 RNA seq of danio rerio RRBS4 RRBS4 Library preparation kit used Zymo Seq RRBS Library Kit     Bisulfite-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP480899     CG4_L7_1.fq.gz CG4_L7_2.fq.gz fastq fastq 1547200200.0 5157334.0 CG4 L7 1.fq.gz 0:150 1:150 A:389261224;C:230650937;G:559928386;T:367293552;N:66101 150 150     389261224 230650937 559928386 367293552 66101 SRX23073959 SRS20033311 SRA1777947 Nord University|Bioscience and Aquaculture Nord University 2 0.01121 0.00022 0.01024 0.00018 0.99713 0.99991 0.56111 1.0 150 150 T T mates < 9% mapping rate illumina novaseq_era unknown random_priming unknown bulk unknown unknown   Norway 2024-01-02 Adult Adult Muscle Muscular System
29648 29648 SRR27397721 SRX23073958 SRS20033310 SRP480899 PRJNA1060279 EPIFISH PRJNA1060279 Other Epigenetic changes in fish during domestication       RRBS library3 CG3   strain:ab|age:adult|collection date:2023 02 04|geo loc name:Italy|sex:male|tissue:Muscle|Source materail identifiers:day 3|BioSampleModel:Model organism or animal                 RNA seq of danio rerio RRBS3 RRBS3 Library preparation kit used Zymo Seq RRBS Library Kit     Bisulfite-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP480899     CG3_L7_1.fq.gz CG3_L7_2.fq.gz fastq fastq 1164022500.0 3880075.0 CG3 L7 1.fq.gz 0:150 1:150 A:281490630;C:172929357;G:423757698;T:285795200;N:49615 150 150     281490630 172929357 423757698 285795200 49615 SRX23073958 SRS20033310 SRA1777947 Nord University|Bioscience and Aquaculture Nord University 2 0.0188 0.00046 0.01744 0.00039 0.99626 0.99981 0.55421 0.6 150 150 T T mates < 9% mapping rate illumina novaseq_era unknown random_priming unknown bulk unknown unknown   Norway 2024-01-02 Adult Adult Muscle Muscular System
29649 29649 SRR27397722 SRX23073957 SRS20033309 SRP480899 PRJNA1060279 EPIFISH PRJNA1060279 Other Epigenetic changes in fish during domestication       RRBS library12 PG4   strain:ab|age:adult|collection date:2023 02 02|geo loc name:Italy|sex:male|tissue:Muscle|Source materail identifiers:day 12|BioSampleModel:Model organism or animal                 RNA seq of danio rerio RRBS12 RRBS12 Library preparation kit used Zymo Seq RRBS Library Kit     Bisulfite-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP480899     PG4_L7_1.fq.gz PG4_L7_2.fq.gz fastq fastq 937521000.0 3125070.0 PG4 L7 1.fq.gz 0:150 1:150 A:230277419;C:145742183;G:328432893;T:233027715;N:40790 150 150     230277419 145742183 328432893 233027715 40790 SRX23073957 SRS20033309 SRA1777947 Nord University|Bioscience and Aquaculture Nord University 2 0.01943 0.01926 0.01799 0.01786 0.99575 0.99588 0.51136 0.48062 150 150 T T mates < 9% mapping rate illumina novaseq_era unknown random_priming unknown bulk unknown unknown   Norway 2024-01-02 Adult Adult Muscle Muscular System
29650 29650 SRR27397723 SRX23073956 SRS20033308 SRP480899 PRJNA1060279 EPIFISH PRJNA1060279 Other Epigenetic changes in fish during domestication       RRBS library11 PG3   strain:ab|age:adult|collection date:2023 02 02|geo loc name:Italy|sex:male|tissue:Muscle|Source materail identifiers:day 11|BioSampleModel:Model organism or animal                 RNA seq of danio rerio RRBS11 RRBS11 Library preparation kit used Zymo Seq RRBS Library Kit     Bisulfite-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP480899     PG3_L7_1.fq.gz PG3_L7_2.fq.gz fastq fastq 1256812500.0 4189375.0 PG3 L7 1.fq.gz 0:150 1:150 A:318736087;C:194540494;G:434374337;T:309107761;N:53821 150 150     318736087 194540494 434374337 309107761 53821 SRX23073956 SRS20033308 SRA1777947 Nord University|Bioscience and Aquaculture Nord University 2 0.01424 0.00046 0.01316 0.00036 0.99683 0.99975 0.49746 0.5 150 150 T T mates < 9% mapping rate illumina novaseq_era unknown random_priming unknown bulk unknown unknown   Norway 2024-01-02 Adult Adult Muscle Muscular System
29651 29651 SRR27397724 SRX23073955 SRS20033307 SRP480899 PRJNA1060279 EPIFISH PRJNA1060279 Other Epigenetic changes in fish during domestication       RRBS library2 CG2   strain:ab|age:adult|collection date:2023 02 03|geo loc name:Italy|sex:male|tissue:Muscle|Source materail identifiers:day 2|BioSampleModel:Model organism or animal                 RNA seq of danio rerio RRBS2 RRBS2 Library preparation kit used Zymo Seq RRBS Library Kit     Bisulfite-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP480899     CG2_L7_1.fq.gz CG2_L7_2.fq.gz fastq fastq 1157888400.0 3859628.0 CG2 L7 1.fq.gz 0:150 1:150 A:292628434;C:171796176;G:406707172;T:286706357;N:50261 150 150     292628434 171796176 406707172 286706357 50261 SRX23073955 SRS20033307 SRA1777947 Nord University|Bioscience and Aquaculture Nord University 2 0.02036 0.02023 0.01903 0.01889 0.99616 0.99614 0.55102 0.57894 150 150 T T mates < 9% mapping rate illumina novaseq_era unknown random_priming unknown bulk unknown unknown   Norway 2024-01-02 Adult Adult Muscle Muscular System
29652 29652 SRR27397725 SRX23073954 SRS20033306 SRP480899 PRJNA1060279 EPIFISH PRJNA1060279 Other Epigenetic changes in fish during domestication       RRBS library1 CG1   strain:ab|age:adult|collection date:2023 02 02|geo loc name:Italy|sex:male|tissue:Muscle|Source materail identifiers:day 1|BioSampleModel:Model organism or animal                 RNA seq of danio rerio RRBS1 RRBS1 Library preparation kit used Zymo Seq RRBS Library Kit     Bisulfite-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP480899     CG1_L7_1.fq.gz CG1_L7_2.fq.gz fastq fastq 1004867700.0 3349559.0 CG1 L7 1.fq.gz 0:150 1:150 A:247727849;C:158203386;G:350367173;T:248526527;N:42765 150 150     247727849 158203386 350367173 248526527 42765 SRX23073954 SRS20033306 SRA1777947 Nord University|Bioscience and Aquaculture Nord University 2 0.02764 0.00147 0.0252 0.00121 0.99233 0.99926 0.51541 0.5 150 150 T T mates < 9% mapping rate illumina novaseq_era unknown random_priming unknown bulk unknown unknown   Norway 2024-01-02 Adult Adult Muscle Muscular System
30673 30673 SRR28233239 SRX23844453 SRS20664879 SRP493528 PRJNA1084193 Knockout transcriptome sequencing of TRPA1b gene in zebrafish PRJNA1084193 Other WT and KO were sampled at the critical and half death time of room temperature and high temperature treatment respectively.         A1b01   strain:TRPA1b KO1|age:4mpf|dev stage:adult|collection date:2024 01 20|geo loc name:China|sex:male|tissue:gill|BioSampleModel:Model organism or animal                 A1b01 A1b01 A1b01 ribonucleic acid     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP493528     A1b-S1_1.fq.gz A1b-S1_2.fq.gz fastq fastq 10214044500.0 34046815.0 A1b S1 1.fq.gz 0:150 1:150 A:2826731317;C:2254770618;G:2368382524;T:2764027721;N:132320 150 150     2826731317 2254770618 2368382524 2764027721 132320 SRX23844453 SRS20664879 SRA1818205 Shanghai Ocean University|College of Aquaculture and Life Sciences Shanghai Ocean University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2024-03-06 Adult Adult Gill Respiratory System
30674 30674 SRR28233240 SRX23844452 SRS20664878 SRP493528 PRJNA1084193 Knockout transcriptome sequencing of TRPA1b gene in zebrafish PRJNA1084193 Other WT and KO were sampled at the critical and half death time of room temperature and high temperature treatment respectively.         WT23   strain:WT9|age:4mpf|dev stage:adult|collection date:2024 01 20|geo loc name:China|sex:male|tissue:gill|BioSampleModel:Model organism or animal                 WT23 WT23 WT23 ribonucleic acid     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP493528     WT-2-3_R1.fq.gz WT-2-3_R2.fq.gz fastq fastq 6168655800.0 20562186.0 WT 2 3 R1.fq.gz 0:150 1:150 A:1556231017;C:1526432275;G:1545153210;T:1540414611;N:424687 150 150     1556231017 1526432275 1545153210 1540414611 424687 SRX23844452 SRS20664878 SRA1818205 Shanghai Ocean University|College of Aquaculture and Life Sciences Shanghai Ocean University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2024-03-06 Adult Adult Gill Respiratory System
30675 30675 SRR28233241 SRX23844451 SRS20664877 SRP493528 PRJNA1084193 Knockout transcriptome sequencing of TRPA1b gene in zebrafish PRJNA1084193 Other WT and KO were sampled at the critical and half death time of room temperature and high temperature treatment respectively.         WT22   strain:WT8|age:4mpf|dev stage:adult|collection date:2024 01 20|geo loc name:China|sex:male|tissue:gill|BioSampleModel:Model organism or animal                 WT22 WT22 WT22 ribonucleic acid     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP493528     WT-2-2_R1.fq.gz WT-2-2_R2.fq.gz fastq fastq 6503274900.0 21677583.0 WT 2 2 R1.fq.gz 0:150 1:150 A:1677274145;C:1574139629;G:1591639511;T:1659773624;N:447991 150 150     1677274145 1574139629 1591639511 1659773624 447991 SRX23844451 SRS20664877 SRA1818205 Shanghai Ocean University|College of Aquaculture and Life Sciences Shanghai Ocean University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2024-03-06 Adult Adult Gill Respiratory System
30676 30676 SRR28233242 SRX23844450 SRS20664876 SRP493528 PRJNA1084193 Knockout transcriptome sequencing of TRPA1b gene in zebrafish PRJNA1084193 Other WT and KO were sampled at the critical and half death time of room temperature and high temperature treatment respectively.         WT21   strain:WT7|age:4mpf|dev stage:adult|collection date:2024 01 20|geo loc name:China|sex:male|tissue:gill|BioSampleModel:Model organism or animal                 WT21 WT21 WT21 ribonucleic acid     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP493528     WT-2-1_R1.fq.gz WT-2-1_R2.fq.gz fastq fastq 6617487600.0 22058292.0 WT 2 1 R1.fq.gz 0:150 1:150 A:1701231328;C:1606849699;G:1625342674;T:1683607145;N:456754 150 150     1701231328 1606849699 1625342674 1683607145 456754 SRX23844450 SRS20664876 SRA1818205 Shanghai Ocean University|College of Aquaculture and Life Sciences Shanghai Ocean University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2024-03-06 Adult Adult Gill Respiratory System
30677 30677 SRR28233243 SRX23844449 SRS20664875 SRP493528 PRJNA1084193 Knockout transcriptome sequencing of TRPA1b gene in zebrafish PRJNA1084193 Other WT and KO were sampled at the critical and half death time of room temperature and high temperature treatment respectively.         WT13   strain:WT6|age:4mpf|dev stage:adult|collection date:2024 01 20|geo loc name:China|sex:male|tissue:gill|BioSampleModel:Model organism or animal                 WT13 WT13 WT13 ribonucleic acid     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP493528     WT-1-3_R1.fq.gz WT-1-3_R2.fq.gz fastq fastq 7102153500.0 23673845.0 WT 1 3 R1.fq.gz 0:150 1:150 A:1842496944;C:1707310744;G:1727403195;T:1824440904;N:501713 150 150     1842496944 1707310744 1727403195 1824440904 501713 SRX23844449 SRS20664875 SRA1818205 Shanghai Ocean University|College of Aquaculture and Life Sciences Shanghai Ocean University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2024-03-06 Adult Adult Gill Respiratory System
30678 30678 SRR28233244 SRX23844448 SRS20664874 SRP493528 PRJNA1084193 Knockout transcriptome sequencing of TRPA1b gene in zebrafish PRJNA1084193 Other WT and KO were sampled at the critical and half death time of room temperature and high temperature treatment respectively.         WT12   strain:WT5|age:4mpf|dev stage:adult|collection date:2024 01 20|geo loc name:China|sex:male|tissue:gill|BioSampleModel:Model organism or animal                 WT12 WT12 WT12 ribonucleic acid     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP493528     WT-1-2_R1.fq.gz WT-1-2_R2.fq.gz fastq fastq 6904290900.0 23014303.0 WT 1 2 R1.fq.gz 0:150 1:150 A:1794495968;C:1655549612;G:1677906470;T:1775860400;N:478450 150 150     1794495968 1655549612 1677906470 1775860400 478450 SRX23844448 SRS20664874 SRA1818205 Shanghai Ocean University|College of Aquaculture and Life Sciences Shanghai Ocean University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2024-03-06 Adult Adult Gill Respiratory System
30679 30679 SRR28233245 SRX23844447 SRS20664873 SRP493528 PRJNA1084193 Knockout transcriptome sequencing of TRPA1b gene in zebrafish PRJNA1084193 Other WT and KO were sampled at the critical and half death time of room temperature and high temperature treatment respectively.         WT11   strain:WT4|age:4mpf|dev stage:adult|collection date:2024 01 20|geo loc name:China|sex:male|tissue:gill|BioSampleModel:Model organism or animal                 WT11 WT11 WT11 ribonucleic acid     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP493528     WT-1-1_R1.fq.gz WT-1-1_R2.fq.gz fastq fastq 7005297000.0 23350990.0 WT 1 1 R1.fq.gz 0:150 1:150 A:1812285786;C:1684304098;G:1717096826;T:1791123167;N:487123 150 150     1812285786 1684304098 1717096826 1791123167 487123 SRX23844447 SRS20664873 SRA1818205 Shanghai Ocean University|College of Aquaculture and Life Sciences Shanghai Ocean University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2024-03-06 Adult Adult Gill Respiratory System
30680 30680 SRR28233246 SRX23844446 SRS20664872 SRP493528 PRJNA1084193 Knockout transcriptome sequencing of TRPA1b gene in zebrafish PRJNA1084193 Other WT and KO were sampled at the critical and half death time of room temperature and high temperature treatment respectively.         WT03   strain:WT3|age:4mpf|dev stage:adult|collection date:2024 01 20|geo loc name:China|sex:male|tissue:gill|BioSampleModel:Model organism or animal                 WT03 WT03 WT03 ribonucleic acid     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP493528     WT-S3_1.fq.gz WT-S3_2.fq.gz fastq fastq 5014921200.0 16716404.0 WT S3 1.fq.gz 0:150 1:150 A:1376105590;C:1123924635;G:1152769107;T:1361994867;N:127001 150 150     1376105590 1123924635 1152769107 1361994867 127001 SRX23844446 SRS20664872 SRA1818205 Shanghai Ocean University|College of Aquaculture and Life Sciences Shanghai Ocean University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2024-03-06 Adult Adult Gill Respiratory System
30681 30681 SRR28233247 SRX23844445 SRS20664871 SRP493528 PRJNA1084193 Knockout transcriptome sequencing of TRPA1b gene in zebrafish PRJNA1084193 Other WT and KO were sampled at the critical and half death time of room temperature and high temperature treatment respectively.         A1b23   strain:TRPA1b KO9|age:4mpf|dev stage:adult|collection date:2024 01 20|geo loc name:China|sex:male|tissue:gill|BioSampleModel:Model organism or animal                 A1b23 A1b23 A1b23 ribonucleic acid     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP493528     A1-2-3_R1.fq.gz A1-2-3_R2.fq.gz fastq fastq 6844595700.0 22815319.0 A1 2 3 R1.fq.gz 0:150 1:150 A:1778935800;C:1644607281;G:1662211377;T:1758352025;N:489217 150 150     1778935800 1644607281 1662211377 1758352025 489217 SRX23844445 SRS20664871 SRA1818205 Shanghai Ocean University|College of Aquaculture and Life Sciences Shanghai Ocean University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2024-03-06 Adult Adult Gill Respiratory System
30682 30682 SRR28233248 SRX23844444 SRS20664870 SRP493528 PRJNA1084193 Knockout transcriptome sequencing of TRPA1b gene in zebrafish PRJNA1084193 Other WT and KO were sampled at the critical and half death time of room temperature and high temperature treatment respectively.         A1b22   strain:TRPA1b KO8|age:4mpf|dev stage:adult|collection date:2024 01 20|geo loc name:China|sex:male|tissue:gill|BioSampleModel:Model organism or animal                 A1b22 A1b22 A1b22 ribonucleic acid     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP493528     A1-2-2_R1.fq.gz A1-2-2_R2.fq.gz fastq fastq 6529918800.0 21766396.0 A1 2 2 R1.fq.gz 0:150 1:150 A:1681524014;C:1580514490;G:1605344761;T:1662085103;N:450432 150 150     1681524014 1580514490 1605344761 1662085103 450432 SRX23844444 SRS20664870 SRA1818205 Shanghai Ocean University|College of Aquaculture and Life Sciences Shanghai Ocean University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2024-03-06 Adult Adult Gill Respiratory System
30683 30683 SRR28233249 SRX23844443 SRS20664869 SRP493528 PRJNA1084193 Knockout transcriptome sequencing of TRPA1b gene in zebrafish PRJNA1084193 Other WT and KO were sampled at the critical and half death time of room temperature and high temperature treatment respectively.         A1b21   strain:TRPA1b KO7|age:4mpf|dev stage:adult|collection date:2024 01 20|geo loc name:China|sex:male|tissue:gill|BioSampleModel:Model organism or animal                 A1b21 A1b21 A1b21 ribonucleic acid     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP493528     A1-2-1_R1.fq.gz A1-2-1_R2.fq.gz fastq fastq 6836499600.0 22788332.0 A1 2 1 R1.fq.gz 0:150 1:150 A:1769098120;C:1648663116;G:1667962343;T:1750293771;N:482250 150 150     1769098120 1648663116 1667962343 1750293771 482250 SRX23844443 SRS20664869 SRA1818205 Shanghai Ocean University|College of Aquaculture and Life Sciences Shanghai Ocean University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2024-03-06 Adult Adult Gill Respiratory System
30684 30684 SRR28233250 SRX23844442 SRS20664868 SRP493528 PRJNA1084193 Knockout transcriptome sequencing of TRPA1b gene in zebrafish PRJNA1084193 Other WT and KO were sampled at the critical and half death time of room temperature and high temperature treatment respectively.         A1b13   strain:TRPA1b KO6|age:4mpf|dev stage:adult|collection date:2024 01 20|geo loc name:China|sex:male|tissue:gill|BioSampleModel:Model organism or animal                 A1b13 A1b13 A1b13 ribonucleic acid     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP493528     A1-1-3_R1.fq.gz A1-1-3_R2.fq.gz fastq fastq 7024153800.0 23413846.0 A1 1 3 R1.fq.gz 0:150 1:150 A:1803658498;C:1704926954;G:1731475860;T:1783603775;N:488713 150 150     1803658498 1704926954 1731475860 1783603775 488713 SRX23844442 SRS20664868 SRA1818205 Shanghai Ocean University|College of Aquaculture and Life Sciences Shanghai Ocean University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2024-03-06 Adult Adult Gill Respiratory System
30685 30685 SRR28233251 SRX23844441 SRS20664867 SRP493528 PRJNA1084193 Knockout transcriptome sequencing of TRPA1b gene in zebrafish PRJNA1084193 Other WT and KO were sampled at the critical and half death time of room temperature and high temperature treatment respectively.         A1b12   strain:TRPA1b KO5|age:4mpf|dev stage:adult|collection date:2024 01 20|geo loc name:China|sex:male|tissue:gill|BioSampleModel:Model organism or animal                 A1b12 A1b12 A1b12 ribonucleic acid     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP493528     A1-1-2_R1.fq.gz A1-1-2_R2.fq.gz fastq fastq 6764278200.0 22547594.0 A1 1 2 R1.fq.gz 0:150 1:150 A:1765465821;C:1610874768;G:1638217652;T:1749259791;N:460168 150 150     1765465821 1610874768 1638217652 1749259791 460168 SRX23844441 SRS20664867 SRA1818205 Shanghai Ocean University|College of Aquaculture and Life Sciences Shanghai Ocean University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2024-03-06 Adult Adult Gill Respiratory System
30686 30686 SRR28233252 SRX23844440 SRS20664866 SRP493528 PRJNA1084193 Knockout transcriptome sequencing of TRPA1b gene in zebrafish PRJNA1084193 Other WT and KO were sampled at the critical and half death time of room temperature and high temperature treatment respectively.         A1b11   strain:TRPA1b KO4|age:4mpf|dev stage:adult|collection date:2024 01 20|geo loc name:China|sex:male|tissue:gill|BioSampleModel:Model organism or animal                 A1b11 A1b11 A1b11 ribonucleic acid     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP493528     A1-1-1_R1.fq.gz A1-1-1_R2.fq.gz fastq fastq 7001419800.0 23338066.0 A1 1 1 R1.fq.gz 0:150 1:150 A:1755052093;C:1727552789;G:1786513789;T:1731804911;N:496218 150 150     1755052093 1727552789 1786513789 1731804911 496218 SRX23844440 SRS20664866 SRA1818205 Shanghai Ocean University|College of Aquaculture and Life Sciences Shanghai Ocean University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2024-03-06 Adult Adult Gill Respiratory System
30687 30687 SRR28233253 SRX23844439 SRS20664865 SRP493528 PRJNA1084193 Knockout transcriptome sequencing of TRPA1b gene in zebrafish PRJNA1084193 Other WT and KO were sampled at the critical and half death time of room temperature and high temperature treatment respectively.         A1b03   strain:TRPA1b KO3|age:4mpf|dev stage:adult|collection date:2024 01 20|geo loc name:China|sex:male|tissue:gill|BioSampleModel:Model organism or animal                 A1b03 A1b03 A1b03 ribonucleic acid     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP493528     A1b-S3_1.fq.gz A1b-S3_2.fq.gz fastq fastq 6656319000.0 22187730.0 A1b S3 1.fq.gz 0:150 1:150 A:1836354615;C:1486285665;G:1534973763;T:1798492449;N:212508 150 150     1836354615 1486285665 1534973763 1798492449 212508 SRX23844439 SRS20664865 SRA1818205 Shanghai Ocean University|College of Aquaculture and Life Sciences Shanghai Ocean University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2024-03-06 Adult Adult Gill Respiratory System
30688 30688 SRR28233254 SRX23844438 SRS20664864 SRP493528 PRJNA1084193 Knockout transcriptome sequencing of TRPA1b gene in zebrafish PRJNA1084193 Other WT and KO were sampled at the critical and half death time of room temperature and high temperature treatment respectively.         A1b02   strain:TRPA1b KO2|age:4mpf|dev stage:adult|collection date:2024 01 20|geo loc name:China|sex:male|tissue:gill|BioSampleModel:Model organism or animal                 A1b02 A1b02 A1b02 ribonucleic acid     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP493528     A1b-S2_1.fq.gz A1b-S2_2.fq.gz fastq fastq 12350635200.0 41168784.0 A1b S2 1.fq.gz 0:150 1:150 A:3393503091;C:2740767056;G:2872562559;T:3343736443;N:66051 150 150     3393503091 2740767056 2872562559 3343736443 66051 SRX23844438 SRS20664864 SRA1818205 Shanghai Ocean University|College of Aquaculture and Life Sciences Shanghai Ocean University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2024-03-06 Adult Adult Gill Respiratory System
30689 30689 SRR28233255 SRX23844437 SRS20664863 SRP493528 PRJNA1084193 Knockout transcriptome sequencing of TRPA1b gene in zebrafish PRJNA1084193 Other WT and KO were sampled at the critical and half death time of room temperature and high temperature treatment respectively.         WT02   strain:WT2|age:4mpf|dev stage:adult|collection date:2024 01 20|geo loc name:China|sex:male|tissue:gill|BioSampleModel:Model organism or animal                 WT02 WT02 WT02 ribonucleic acid     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP493528     WT-S2_1.fq.gz WT-S2_2.fq.gz fastq fastq 6740391600.0 22467972.0 WT S2 1.fq.gz 0:150 1:150 A:1839600016;C:1523127157;G:1552667106;T:1824551017;N:446304 150 150     1839600016 1523127157 1552667106 1824551017 446304 SRX23844437 SRS20664863 SRA1818205 Shanghai Ocean University|College of Aquaculture and Life Sciences Shanghai Ocean University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2024-03-06 Adult Adult Gill Respiratory System
30690 30690 SRR28233256 SRX23844436 SRS20664862 SRP493528 PRJNA1084193 Knockout transcriptome sequencing of TRPA1b gene in zebrafish PRJNA1084193 Other WT and KO were sampled at the critical and half death time of room temperature and high temperature treatment respectively.         WT01   strain:WT1|age:4mpf|dev stage:adult|collection date:2024 01 20|geo loc name:China|sex:male|tissue:gill|BioSampleModel:Model organism or animal                 WT01 WT01 WT01 ribonucleic acid     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP493528     WT-S1_1.fq.gz WT-S1_2.fq.gz fastq fastq 7104288900.0 23680963.0 WT S1 1.fq.gz 0:150 1:150 A:1946897695;C:1592125410;G:1641002833;T:1923739782;N:523180 150 150     1946897695 1592125410 1641002833 1923739782 523180 SRX23844436 SRS20664862 SRA1818205 Shanghai Ocean University|College of Aquaculture and Life Sciences Shanghai Ocean University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2024-03-06 Adult Adult Gill Respiratory System
32362 32362 SRR29157958 SRX24679082 SRS21413713 SRP509709 PRJNA1115529 Danio rerio Raw sequence reads of gonadal tissue PRJNA1115529 Whole Genome Sequencing Evaluation of gene expression changes in zebrafish gonads following a full life cycle exposure to the non steroidal anti inflammatory drug naproxen NPX in order to evaluate the main pathways affected     The current study assessed the long term effects of environmentally relevant concentrations of NPX ng/L to low g/L on zebrafish ovary Model organism or animal sample from Danio rerio Ovary NPX   strain:AB|age:4 month|dev stage:Adult|collection date:2021 03|geo loc name:Portugal: Matosinhos|sex:female|tissue:Ovary|BioSampleModel:Model organism or animal                 zebrafish ovary RNA seq from NPX Ovary NPX Ovary NPX The current study assessed the long term effects of environmentally relevant concentrations of NPX ng/L to low g/L on parental zebrafish ovary     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP509709     H4_2.fq.gz H4_1.fq.gz H3_2.fq.gz H3_1.fq.gz H2_2.fq.gz H2_1.fq.gz H1_2.fq.gz H1_1.fq.gz fastq fastq fastq fastq fastq fastq fastq fastq 37288126200.0 124293754.0 H1 1.fq.gz 0:150 1:150 A:9870906480;C:8895442858;G:8761667172;T:9759826428;N:283262 150 150     9870906480 8895442858 8761667172 9759826428 283262 SRX24679082 SRS21413713 SRA1876810 CIIMAR - Interdisciplinary Centre of Marine and Environmental Research|EDEC - Endocrine Disruptors and Emergent Contamina CIIMAR - Interdisciplinary Centre of Marine and Environmental Research 2 0.93451 0.93482 0.01992 0.01985 0.75966 0.75943 0.45469 0.4556 150 150 B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   Portugal 2024-05-24 Adult Adult Gonad Reproductive System
32363 32363 SRR29157959 SRX24679081 SRS21413712 SRP509709 PRJNA1115529 Danio rerio Raw sequence reads of gonadal tissue PRJNA1115529 Whole Genome Sequencing Evaluation of gene expression changes in zebrafish gonads following a full life cycle exposure to the non steroidal anti inflammatory drug naproxen NPX in order to evaluate the main pathways affected     The current study assessed the long term effects of environmentally relevant concentrations of NPX ng/L to low g/L on zebrafish ovary Model organism or animal sample from Danio rerio Ovary Ctrl   strain:AB|age:4 month|dev stage:Adult|collection date:2021 03|geo loc name:Portugal: Matosinhos|sex:female|tissue:Ovary|BioSampleModel:Model organism or animal                 zebrafish ovary RNA seq from Control Ovary CTRL Ovary CTRL The current study assessed the long term effects of environmentally relevant concentrations of NPX ng/L to low g/L on parental zebrafish ovary     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP509709     D4_2.fq.gz D4_1.fq.gz D3_2.fq.gz D3_1.fq.gz D2_2.fq.gz D2_1.fq.gz D1_2.fq.gz D1_1.fq.gz fastq fastq fastq fastq fastq fastq fastq fastq 48240351600.0 160801172.0 D1 1.fq.gz 0:150 1:150 A:12507813252;C:11711256340;G:11706267844;T:12313668932;N:1345232 150 150     12507813252 11711256340 11706267844 12313668932 1345232 SRX24679081 SRS21413712 SRA1876810 CIIMAR - Interdisciplinary Centre of Marine and Environmental Research|EDEC - Endocrine Disruptors and Emergent Contamina CIIMAR - Interdisciplinary Centre of Marine and Environmental Research 2 0.93217 0.93303 0.01595 0.01634 0.75948 0.75998 0.46158 0.46061 150 150 B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   Portugal 2024-05-24 Adult Adult Gonad Reproductive System
32364 32364 SRR29157960 SRX24679080 SRS21413711 SRP509709 PRJNA1115529 Danio rerio Raw sequence reads of gonadal tissue PRJNA1115529 Whole Genome Sequencing Evaluation of gene expression changes in zebrafish gonads following a full life cycle exposure to the non steroidal anti inflammatory drug naproxen NPX in order to evaluate the main pathways affected     The current study assessed the long term effects of environmentally relevant concentrations of NPX ng/L to low g/L on zebrafish testis Model organism or animal sample from Danio rerio Testis NPX   strain:AB|age:4 month|dev stage:Adult|collection date:2021 03|geo loc name:Portugal: Matosinhos|sex:male|tissue:Testis|BioSampleModel:Model organism or animal                 zebrafish testis RNA seq from NPX Testis NPX Testis NPX The current study assessed the long term effects of environmentally relevant concentrations of NPX ng/L to low g/L on parental zebrafish testis     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP509709     G4_2.fq.gz G4_1.fq.gz G3_2.fq.gz G3_1.fq.gz G2_2.fq.gz G2_1.fq.gz G1_2.fq.gz G1_1.fq.gz fastq fastq fastq fastq fastq fastq fastq fastq 48293186700.0 160977289.0 G1 1.fq.gz 0:150 1:150 A:12737664564;C:11515099418;G:11506913376;T:12532403181;N:1106161 150 150     12737664564 11515099418 11506913376 12532403181 1106161 SRX24679080 SRS21413711 SRA1876810 CIIMAR - Interdisciplinary Centre of Marine and Environmental Research|EDEC - Endocrine Disruptors and Emergent Contamina CIIMAR - Interdisciplinary Centre of Marine and Environmental Research 2 0.93531 0.93628 0.04883 0.04847 0.66707 0.66728 0.47213 0.47226 150 150 B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   Portugal 2024-05-24 Adult Adult Gonad Reproductive System
32365 32365 SRR29157961 SRX24679079 SRS21413710 SRP509709 PRJNA1115529 Danio rerio Raw sequence reads of gonadal tissue PRJNA1115529 Whole Genome Sequencing Evaluation of gene expression changes in zebrafish gonads following a full life cycle exposure to the non steroidal anti inflammatory drug naproxen NPX in order to evaluate the main pathways affected     The current study assessed the long term effects of environmentally relevant concentrations of NPX ng/L to low g/L on parental zebrafish testis Model organism or animal sample from Danio rerio Testis CTRL   strain:AB|age:4 month|dev stage:Adult|collection date:2021 03|geo loc name:Portugal: Matosinhos|sex:male|tissue:Testis|BioSampleModel:Model organism or animal                 zebrafish testis RNA seq from Control Testis CTRL Testis CTRL The current study assessed the long term effects of environmentally relevant concentrations of NPX ng/L to low g/L on parental zebrafish testis     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP509709     C4_2.fq.gz C4_1.fq.gz C3_2.fq.gz C3_1.fq.gz C2_2.fq.gz C2_1.fq.gz C1_2.fq.gz C1_1.fq.gz fastq fastq fastq fastq fastq fastq fastq fastq 47457731100.0 158192437.0 C1 1.fq.gz 0:150 1:150 A:12817545225;C:10993554835;G:10941137146;T:12704995076;N:498818 150 150     12817545225 10993554835 10941137146 12704995076 498818 SRX24679079 SRS21413710 SRA1876810 CIIMAR - Interdisciplinary Centre of Marine and Environmental Research|EDEC - Endocrine Disruptors and Emergent Contamina CIIMAR - Interdisciplinary Centre of Marine and Environmental Research 2 0.93023 0.9282 0.0889 0.08851 0.63106 0.63098 0.4869 0.48618 150 150 B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   Portugal 2024-05-24 Adult Adult Gonad Reproductive System
33609 33609 SRR30247666 SRX25709110 SRS22350227 SRP526520 PRJNA1148340 RNA Seq analyses of hey2 mutant and wild type sibling zebrafish hearts PRJNA1148340 Other To assess the effects of Hey2 deficiency we performed transcriptome analyses of hey2 mutant and wild type sibling zebrafish hearts at 3 mpf.       RNA Seq for hey25nt / mutant zebrafish hearts at 3 mpf rep3 KO3   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:3 month|dev stage:not applicable|collection date:not applicable|geo loc name:not applicable|sex:male and female|tissue:Heart|ID:OE replicate 3|BioSampleModel:Model organism or animal                 RNA Seq for hey25nt / mutant zebrafish hearts at 3 mpf rep3 hey25nt / replicate 3 hey25nt / replicate 3 RNA Seq for hey25nt / mutant zebrafish hearts at 3 mpf replicate 3     RNA-Seq TRANSCRIPTOMIC PCR PAIRED BGISEQ BGISEQ-500   SRP526520     KO_3_1.fq.gz KO_3_2.fq.gz fastq fastq 6793426200.0 22644754.0 KO 3 1.fq.gz 0:150 1:150 A:1845779030;C:1550159613;G:1539592354;T:1857860950;N:34253 150 150     1845779030 1550159613 1539592354 1857860950 34253 SRX25709110 SRS22350227 SRA1948261 East China Normal University|School of Life Sciences East China Normal University 2 0.94555 0.92523 0.0631 0.06139 0.76672 0.76968 0.56501 0.57019 150 150 B B biological fallback assumption bgi bgi unknown random_priming unknown bulk unknown unknown   China 2024-08-15 Adult Adult Heart Cardiovascular System
33610 33610 SRR30247667 SRX25709109 SRS22350226 SRP526520 PRJNA1148340 RNA Seq analyses of hey2 mutant and wild type sibling zebrafish hearts PRJNA1148340 Other To assess the effects of Hey2 deficiency we performed transcriptome analyses of hey2 mutant and wild type sibling zebrafish hearts at 3 mpf.       RNA Seq for hey25nt / mutantzebrafish hearts at 3 mpf rep2 KO2   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:3 month|dev stage:not applicable|collection date:not applicable|geo loc name:not applicable|sex:male and female|tissue:Heart|ID:OE replicate 2|BioSampleModel:Model organism or animal                 RNA Seq for hey25nt / mutant zebrafish hearts at 3 mpf rep2 hey25nt / replicate 2 hey25nt / replicate 2 RNA Seq for hey25nt / mutant zebrafish hearts at 3 mpf replicate 2     RNA-Seq TRANSCRIPTOMIC PCR PAIRED BGISEQ BGISEQ-500   SRP526520     KO_2_1.fq.gz KO_2_2.fq.gz fastq fastq 6577703400.0 21925678.0 KO 2 1.fq.gz 0:150 1:150 A:1795319867;C:1492750718;G:1485718638;T:1803881133;N:33044 150 150     1795319867 1492750718 1485718638 1803881133 33044 SRX25709109 SRS22350226 SRA1948261 East China Normal University|School of Life Sciences East China Normal University 2 0.94565 0.92404 0.06212 0.06008 0.77281 0.77546 0.55478 0.56589 150 150 B B biological fallback assumption bgi bgi unknown random_priming unknown bulk unknown unknown   China 2024-08-15 Adult Adult Heart Cardiovascular System
33611 33611 SRR30247668 SRX25709108 SRS22350225 SRP526520 PRJNA1148340 RNA Seq analyses of hey2 mutant and wild type sibling zebrafish hearts PRJNA1148340 Other To assess the effects of Hey2 deficiency we performed transcriptome analyses of hey2 mutant and wild type sibling zebrafish hearts at 3 mpf.       RNA Seq for hey25nt / mutant zebrafish hearts at 3 mpf rep1 KO1   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:3 month|dev stage:not applicable|collection date:not applicable|geo loc name:not applicable|sex:male and female|tissue:Heart|ID:OE replicate 1|BioSampleModel:Model organism or animal                 RNA Seq for hey25nt / mutant zebrafish hearts at 3 mpf rep1 hey25nt / replicate 1 hey25nt / replicate 1 RNA Seq for hey25nt / mutant zebrafish hearts at 3 mpf replicate 1     RNA-Seq TRANSCRIPTOMIC PCR PAIRED BGISEQ BGISEQ-500   SRP526520     KO_1_2.fq.gz KO_1_1.fq.gz fastq fastq 6592159500.0 21973865.0 KO 1 1.fq.gz 0:150 1:150 A:1800707634;C:1491918482;G:1484850929;T:1814648405;N:34050 150 150     1800707634 1491918482 1484850929 1814648405 34050 SRX25709108 SRS22350225 SRA1948261 East China Normal University|School of Life Sciences East China Normal University 2 0.94443 0.92689 0.06601 0.06488 0.76883 0.77033 0.58332 0.52175 150 150 B B biological fallback assumption bgi bgi unknown random_priming unknown bulk unknown unknown   China 2024-08-15 Adult Adult Heart Cardiovascular System
33612 33612 SRR30247669 SRX25709107 SRS22350224 SRP526520 PRJNA1148340 RNA Seq analyses of hey2 mutant and wild type sibling zebrafish hearts PRJNA1148340 Other To assess the effects of Hey2 deficiency we performed transcriptome analyses of hey2 mutant and wild type sibling zebrafish hearts at 3 mpf.       RNA Seq for hey2+/+ zebrafish hearts at 3 mpf rep3 WT3   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:3 month|dev stage:not applicable|collection date:not applicable|geo loc name:not applicable|sex:male and female|tissue:Heart|ID:CTL replicate 3|BioSampleModel:Model organism or animal                 RNA Seq for hey2+/+ zebrafish hearts at 3 mpf rep3 hey2+/+ replicate 3 hey2+/+ replicate 3 RNA Seq for hey2+/+ zebrafish hearts at 3 mpf replicate 3     RNA-Seq TRANSCRIPTOMIC PCR PAIRED BGISEQ BGISEQ-500   SRP526520     WT_3_1.fq.gz WT_3_2.fq.gz fastq fastq 6582842700.0 21942809.0 WT 3 1.fq.gz 0:150 1:150 A:1796301568;C:1494922823;G:1487154319;T:1804427831;N:36159 150 150     1796301568 1494922823 1487154319 1804427831 36159 SRX25709107 SRS22350224 SRA1948261 East China Normal University|School of Life Sciences East China Normal University 2 0.94446 0.92023 0.06492 0.06289 0.76694 0.7699 0.55651 0.53407 150 150 B B biological fallback assumption bgi bgi unknown random_priming unknown bulk unknown unknown   China 2024-08-15 Adult Adult Heart Cardiovascular System
33613 33613 SRR30247670 SRX25709106 SRS22350223 SRP526520 PRJNA1148340 RNA Seq analyses of hey2 mutant and wild type sibling zebrafish hearts PRJNA1148340 Other To assess the effects of Hey2 deficiency we performed transcriptome analyses of hey2 mutant and wild type sibling zebrafish hearts at 3 mpf.       RNA Seq for hey2+/+ zebrafish hearts at 3 mpf rep2 WT2   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:3 month|dev stage:not applicable|collection date:not applicable|geo loc name:not applicable|sex:male and female|tissue:Heart|ID:CTL replicate 2|BioSampleModel:Model organism or animal                 RNA Seq for hey2+/+ zebrafish hearts at 3 mpf rep2 hey2+/+ replicate 2 hey2+/+ replicate 2 RNA Seq for hey2+/+ zebrafish hearts at 3 mpf replicate 2     RNA-Seq TRANSCRIPTOMIC PCR PAIRED BGISEQ BGISEQ-500   SRP526520     WT_2_2.fq.gz WT_2_1.fq.gz fastq fastq 6632526000.0 22108420.0 WT 2 1.fq.gz 0:150 1:150 A:1811392253;C:1505075703;G:1495091968;T:1820928778;N:37298 150 150     1811392253 1505075703 1495091968 1820928778 37298 SRX25709106 SRS22350223 SRA1948261 East China Normal University|School of Life Sciences East China Normal University 2 0.94532 0.92096 0.06496 0.06227 0.76564 0.76909 0.56754 0.57117 150 150 B B biological fallback assumption bgi bgi unknown random_priming unknown bulk unknown unknown   China 2024-08-15 Adult Adult Heart Cardiovascular System
33614 33614 SRR30247671 SRX25709105 SRS22350222 SRP526520 PRJNA1148340 RNA Seq analyses of hey2 mutant and wild type sibling zebrafish hearts PRJNA1148340 Other To assess the effects of Hey2 deficiency we performed transcriptome analyses of hey2 mutant and wild type sibling zebrafish hearts at 3 mpf.       RNA Seq for hey2+/+ zebrafish hearts at 3 mpf rep1 WT1   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:3 month|dev stage:not applicable|collection date:not applicable|geo loc name:not applicable|sex:male and female|tissue:Heart|ID:CTL replicate 1|BioSampleModel:Model organism or animal                 RNA Seq for hey2+/+ zebrafish hearts at 3 mpf rep1 hey2+/+ replicate 1 hey2+/+ replicate 1 RNA Seq for hey2+/+ zebrafish hearts at 3 mpf replicate 1     RNA-Seq TRANSCRIPTOMIC PCR PAIRED BGISEQ BGISEQ-500   SRP526520     WT_1_1.fq.gz WT_1_2.fq.gz fastq fastq 6601461900.0 22004873.0 WT 1 1.fq.gz 0:150 1:150 A:1816453592;C:1485325900;G:1476423985;T:1823223402;N:35021 150 150     1816453592 1485325900 1476423985 1823223402 35021 SRX25709105 SRS22350222 SRA1948261 East China Normal University|School of Life Sciences East China Normal University 2 0.9482 0.92609 0.05744 0.0553 0.77423 0.77699 0.53884 0.54075 150 150 B B biological fallback assumption bgi bgi unknown random_priming unknown bulk unknown unknown   China 2024-08-15 Adult Adult Heart Cardiovascular System
33833 33833 SRR31441376 SRX26810183 SRS22696876 SRP533745 PRJNA1163016 Pseudoxanthoma elasticum PXE disease model sequencing in zebrafish PRJNA1163016 Other PXE is a rare multisystem disorder caused by mutations in the ABCC6/MRP6 gene associated with adverse clinical outcomes in cardiovascular diseases. However the underlying cardiovascular pathological mechanisms remain elusive. Transcriptomic analysis reveals change in the expression of genes related to the circulatory system and signal transduction.       RNA Seq for abcc6a8nt / mutant zebrafish hearts at 6 mpf 8 mpf rep1 HO 1   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:6 month 8 month|dev stage:not applicable|collection date:not applicable|geo loc name:not applicable|sex:male and female|tissue:Heart|ID:Mutant replicate 1|BioSampleModel:Model organism or animal                 RNA Seq for HO 2 HO 1 HO 2 RNA Seq for abcc6a8nt / mutant zebrafish hearts at 6 mpf 8 mpf rep1     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP533745     L1EHF0600987--HO_2H.R1.raw.fastq.gz L1EHF0600987--HO_2H.R2.raw.fastq.gz fastq fastq 6373025366.0 21102733.0 L1EHF0600987 HO 2H.R1.raw.fastq.gz 0:151 1:151 A:1745363166;C:1436102356;G:1463099869;T:1728443182;N:16793 151 151     1745363166 1436102356 1463099869 1728443182 16793 SRX26810183 SRS22696876     Guangdong Cardiovascular Institute                       B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2024-11-22 Adult Adult Heart Cardiovascular System
33834 33834 SRR30732053 SRX26134987 SRS22696876 SRP533745 PRJNA1163016 Pseudoxanthoma elasticum PXE disease model sequencing in zebrafish PRJNA1163016 Other PXE is a rare multisystem disorder caused by mutations in the ABCC6/MRP6 gene associated with adverse clinical outcomes in cardiovascular diseases. However the underlying cardiovascular pathological mechanisms remain elusive. Transcriptomic analysis reveals change in the expression of genes related to the circulatory system and signal transduction.       RNA Seq for abcc6a8nt / mutant zebrafish hearts at 6 mpf 8 mpf rep1 HO 1   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:6 month 8 month|dev stage:not applicable|collection date:not applicable|geo loc name:not applicable|sex:male and female|tissue:Heart|ID:Mutant replicate 1|BioSampleModel:Model organism or animal                 RNA Seq for HO 1 HO 1 HO 1 RNA Seq for abcc6a8nt / mutant zebrafish hearts at 6 mpf 8 mpf rep1     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP533745     L1EHF0600986--H0_1H.R1.raw.fastq.gz L1EHF0600986--H0_1H.R2.raw.fastq.gz fastq fastq 6369597666.0 21091383.0 L1EHF0600986 H0 1H.R1.raw.fastq.gz 0:151 1:151 A:1718159779;C:1459536211;G:1492957247;T:1698927602;N:16827 151 151     1718159779 1459536211 1492957247 1698927602 16827 SRX26134987 SRS22696876     Guangdong Cardiovascular Institute                       B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2024-09-19 Adult Adult Heart Cardiovascular System
33835 33835 SRR30732054 SRX26134986 SRS22696875 SRP533745 PRJNA1163016 Pseudoxanthoma elasticum PXE disease model sequencing in zebrafish PRJNA1163016 Other PXE is a rare multisystem disorder caused by mutations in the ABCC6/MRP6 gene associated with adverse clinical outcomes in cardiovascular diseases. However the underlying cardiovascular pathological mechanisms remain elusive. Transcriptomic analysis reveals change in the expression of genes related to the circulatory system and signal transduction.       RNA Seq for abcc6a+/+ zebrafish hearts at 6 mpf 8 mpf rep2 WT 2   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:6 month 8 month|dev stage:not applicable|collection date:not applicable|geo loc name:not applicable|sex:male and female|tissue:Heart|ID:Ctrl replicate 2|BioSampleModel:Model organism or animal                 RNA Seq for WT 2 WT 2 WT 2 RNA Seq for abcc6a+/+ zebrafish hearts at 6 mpf 8 mpf rep2     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP533745     L1EHF0600985--WT_2H.R1.raw.fastq.gz L1EHF0600985--WT_2H.R2.raw.fastq.gz fastq fastq 6431668934.0 21296917.0 L1EHF0600985 WT 2H.R1.raw.fastq.gz 0:151 1:151 A:1743394409;C:1464490412;G:1498514260;T:1725252317;N:17536 151 151     1743394409 1464490412 1498514260 1725252317 17536 SRX26134986 SRS22696875     Guangdong Cardiovascular Institute                       B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2024-09-19 Adult Adult Heart Cardiovascular System
33836 33836 SRR30732055 SRX26134985 SRS22696874 SRP533745 PRJNA1163016 Pseudoxanthoma elasticum PXE disease model sequencing in zebrafish PRJNA1163016 Other PXE is a rare multisystem disorder caused by mutations in the ABCC6/MRP6 gene associated with adverse clinical outcomes in cardiovascular diseases. However the underlying cardiovascular pathological mechanisms remain elusive. Transcriptomic analysis reveals change in the expression of genes related to the circulatory system and signal transduction.       RNA Seq for abcc6a+/+ zebrafish hearts at 6 mpf 8 mpf rep1 WT 1   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:6 month 8 month|dev stage:not applicable|collection date:not applicable|geo loc name:not applicable|sex:male and female|tissue:Heart|ID:Ctrl replicate 1|BioSampleModel:Model organism or animal                 RNA Seq for WT 1 WT 1 WT 1 RNA Seq for abcc6a+/+ zebrafish hearts at 6 mpf 8 mpf rep1     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP533745     L1EHF0600984--WT_1H.R1.raw.fastq.gz L1EHF0600984--WT_1H.R2.raw.fastq.gz fastq fastq 6277896574.0 20787737.0 L1EHF0600984 WT 1H.R1.raw.fastq.gz 0:151 1:151 A:1703988195;C:1423563137;G:1475908891;T:1674419696;N:16655 151 151     1703988195 1423563137 1475908891 1674419696 16655 SRX26134985 SRS22696874     Guangdong Cardiovascular Institute                       B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2024-09-19 Adult Adult Heart Cardiovascular System
34188 34188 SRR31441224 SRX26810034 SRS23295247 SRP546933 PRJNA1189340 Pseudoxanthoma elasticum PXE disease model and heart regeneration PRJNA1189340 Other         RNA Seq for abcc6a8nt / mutant cryosection zebrafish hearts at 6 mpf 8 mpf rep2 HO 2 cryosection heart   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:6 month 8 month|dev stage:not applicable|collection date:not applicable|geo loc name:not applicable|sex:male and female|tissue:Heart|ID:Mutant replicate 2|BioSampleModel:Model organism or animal                 RNA Seq for HO 2 HO 2 HO 2 RNA Seq for abcc6a8nt / mutant zebrafish hearts at 6 mpf 8 mpf rep1     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP546933     L1EIA1200826-HO_2.R1.raw.fastq.gz L1EIA1200826-HO_2.R2.raw.fastq.gz fastq fastq 7242400014.0 23981457.0 L1EIA1200826 HO 2.R1.raw.fastq.gz 0:151 1:151 A:2002602509;C:1618196753;G:1648132346;T:1968161693;N:5306713 151 151     2002602509 1618196753 1648132346 1968161693 5306713 SRX26810034 SRS23295247     Guangdong Cardiovascular Institute                       B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2024-11-22 Adult Adult Heart Cardiovascular System
34189 34189 SRR31441225 SRX26810033 SRS23295246 SRP546933 PRJNA1189340 Pseudoxanthoma elasticum PXE disease model and heart regeneration PRJNA1189340 Other         RNA Seq for abcc6a8nt / mutant zebrafish cryosection hearts at 6 mpf 8 mpf rep1 HO 1 cryosection heart   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:6 month 8 month|dev stage:not applicable|collection date:not applicable|geo loc name:not applicable|sex:male and female|tissue:Heart|ID:Mutant replicate 1|BioSampleModel:Model organism or animal                 RNA Seq for HO 1 HO 1 HO 1 RNA Seq for abcc6a8nt / mutant zebrafish hearts at 6 mpf 8 mpf rep1     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP546933     L1EIA1200825-HO_1.R1.raw.fastq.gz L1EIA1200825-HO_1.R2.raw.fastq.gz fastq fastq 7908051502.0 26185601.0 L1EIA1200825 HO 1.R1.raw.fastq.gz 0:151 1:151 A:2187398944;C:1761592009;G:1795611307;T:2157740883;N:5708359 151 151     2187398944 1761592009 1795611307 2157740883 5708359 SRX26810033 SRS23295246     Guangdong Cardiovascular Institute                       B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2024-11-22 Adult Adult Heart Cardiovascular System
34190 34190 SRR31441226 SRX26810032 SRS23295245 SRP546933 PRJNA1189340 Pseudoxanthoma elasticum PXE disease model and heart regeneration PRJNA1189340 Other         RNA Seq for abcc6a+/+ zebrafish cryosection hearts at 6 mpf 8 mpf rep2 WT 2 cryosection heart   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:6 month 8 month|dev stage:not applicable|collection date:not applicable|geo loc name:not applicable|sex:male and female|tissue:Heart|ID:Ctrl replicate 2|BioSampleModel:Model organism or animal                 RNA Seq for WT 2 WT 2 WT 2 RNA Seq for abcc6a+/+ zebrafish hearts at 6 mpf 8 mpf rep2     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP546933     L1EIA1200823-WT_2.R1.raw.fastq.gz L1EIA1200823-WT_2.R2.raw.fastq.gz fastq fastq 7322202306.0 24245703.0 L1EIA1200823 WT 2.R1.raw.fastq.gz 0:151 1:151 A:2040218817;C:1615688362;G:1649087360;T:2012040914;N:5166853 151 151     2040218817 1615688362 1649087360 2012040914 5166853 SRX26810032 SRS23295245     Guangdong Cardiovascular Institute                       B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2024-11-22 Adult Adult Heart Cardiovascular System
34191 34191 SRR31441227 SRX26810031 SRS23295244 SRP546933 PRJNA1189340 Pseudoxanthoma elasticum PXE disease model and heart regeneration PRJNA1189340 Other         RNA Seq for abcc6a+/+ zebrafish cryosection hearts at 6 mpf 8 mpf rep1 WT 1 cryosection heart   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:6 month 8 month|dev stage:not applicable|collection date:not applicable|geo loc name:not applicable|sex:male and female|tissue:Heart|ID:Ctrl replicate 1|BioSampleModel:Model organism or animal                 RNA Seq for WT 1 WT 1 WT 1 RNA Seq for abcc6a+/+ zebrafish hearts at 6 mpf 8 mpf rep1     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP546933     L1EIA1200822-WT_1.R1.raw.fastq.gz L1EIA1200822-WT_1.R2.raw.fastq.gz fastq fastq 7055242460.0 23361730.0 L1EIA1200822 WT 1.R1.raw.fastq.gz 0:151 1:151 A:1997464555;C:1527077848;G:1561244846;T:1964383184;N:5072027 151 151     1997464555 1527077848 1561244846 1964383184 5072027 SRX26810031 SRS23295244     Guangdong Cardiovascular Institute                       B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2024-11-22 Adult Adult Heart Cardiovascular System
34198 34198 SRR31479986 SRX26848533 SRS23332379 SRP547192 PRJNA1189851 Pseudoxanthoma elasticum PXE disease model sequencing in zebrafish bone and scale PRJNA1189851 Other PXE is a rare multisystem disorder caused by mutations in the ABCC6/MRP6 gene associated with adverse clinical outcomes in cardiovascular diseases. However the underlying cardiovascular pathological mechanisms remain elusive. Transcriptomic analysis reveals change in the expression of genes related to the bone and scale.       RNA Seq for Type3B 2 abcc6a8nt / mutant zebrafish b1 at 6 mpf 8 mpf rep1 Type3B 2   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:6 month 8 month|dev stage:not applicable|collection date:2023 05 08|geo loc name:not applicable|sex:male and female|tissue:B1|BioSampleModel:Model organism or animal                 RNA Seq for Type3B 2 Type3B 2 Type3B 2 RNA Seq for abcc6a8nt / mutant zebrafish hearts at 6 mpf 8 mpf rep2     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP547192     L1EHF0600995--Type3B_2.R1.raw.fastq.gz L1EHF0600995--Type3B_2.R2.raw.fastq.gz fastq fastq 7042308404.0 23318902.0 L1EHF0600995 Type3B 2.R1.raw.fastq.gz 0:151 1:151 A:1844855580;C:1674932476;G:1701372344;T:1821129313;N:18691 151 151     1844855580 1674932476 1701372344 1821129313 18691 SRX26848533 SRS23332379     Guangdong Cardiovascular Institute                       B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2024-11-24 Adult Adult Heart Cardiovascular System
34199 34199 SRR31479987 SRX26848532 SRS23332378 SRP547192 PRJNA1189851 Pseudoxanthoma elasticum PXE disease model sequencing in zebrafish bone and scale PRJNA1189851 Other PXE is a rare multisystem disorder caused by mutations in the ABCC6/MRP6 gene associated with adverse clinical outcomes in cardiovascular diseases. However the underlying cardiovascular pathological mechanisms remain elusive. Transcriptomic analysis reveals change in the expression of genes related to the bone and scale.       RNA Seq for Type3B 1 abcc6a8nt / mutant zebrafish b1 at 6 mpf 8 mpf rep1 Type3B 1   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:6 month 8 month|dev stage:not applicable|collection date:2023 05 07|geo loc name:not applicable|sex:male and female|tissue:B1|BioSampleModel:Model organism or animal                 RNA Seq for Type3B 1 Type3B 1 Type3B 1 RNA Seq for abcc6a8nt / mutant zebrafish hearts at 6 mpf 8 mpf rep1     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP547192     L1EHF0600994--Type3B_1.R1.raw.fastq.gz L1EHF0600994--Type3B_1.R2.raw.fastq.gz fastq fastq 9559607056.0 31654328.0 L1EHF0600994 Type3B 1.R1.raw.fastq.gz 0:151 1:151 A:2506873093;C:2261724862;G:2309662215;T:2481321575;N:25311 151 151     2506873093 2261724862 2309662215 2481321575 25311 SRX26848532 SRS23332378     Guangdong Cardiovascular Institute                       B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2024-11-24 Adult Adult Heart Cardiovascular System
34200 34200 SRR31479988 SRX26848531 SRS23332377 SRP547192 PRJNA1189851 Pseudoxanthoma elasticum PXE disease model sequencing in zebrafish bone and scale PRJNA1189851 Other PXE is a rare multisystem disorder caused by mutations in the ABCC6/MRP6 gene associated with adverse clinical outcomes in cardiovascular diseases. However the underlying cardiovascular pathological mechanisms remain elusive. Transcriptomic analysis reveals change in the expression of genes related to the bone and scale.       RNA Seq for Type2B 2 abcc6a8nt / mutant zebrafish b1 at 6 mpf 8 mpf rep1 Type2B 2   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:6 month 8 month|dev stage:not applicable|collection date:2023 05 06|geo loc name:not applicable|sex:male and female|tissue:B1|BioSampleModel:Model organism or animal                 RNA Seq for Type2B 2 Type2B 2 Type2B 2 RNA Seq for abcc6a8nt / mutant zebrafish hearts at 6 mpf 8 mpf rep2     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP547192     L1EHF0600993--Type2B_2.R1.raw.fastq.gz L1EHF0600993--Type2B_2.R2.raw.fastq.gz fastq fastq 8451570566.0 27985333.0 L1EHF0600993 Type2B 2.R1.raw.fastq.gz 0:151 1:151 A:2206016865;C:2013747714;G:2053206643;T:2178577239;N:22105 151 151     2206016865 2013747714 2053206643 2178577239 22105 SRX26848531 SRS23332377     Guangdong Cardiovascular Institute                       B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2024-11-24 Adult Adult Heart Cardiovascular System
34201 34201 SRR31479989 SRX26848530 SRS23332376 SRP547192 PRJNA1189851 Pseudoxanthoma elasticum PXE disease model sequencing in zebrafish bone and scale PRJNA1189851 Other PXE is a rare multisystem disorder caused by mutations in the ABCC6/MRP6 gene associated with adverse clinical outcomes in cardiovascular diseases. However the underlying cardiovascular pathological mechanisms remain elusive. Transcriptomic analysis reveals change in the expression of genes related to the bone and scale.       RNA Seq for Type2B 1 abcc6a8nt / mutant zebrafish b1 at 6 mpf 8 mpf rep1 Type2B 1   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:6 month 8 month|dev stage:not applicable|collection date:2023 05 05|geo loc name:not applicable|sex:male and female|tissue:B1|BioSampleModel:Model organism or animal                 RNA Seq for Type2B 1 Type2B 1 Type2B 1 RNA Seq for abcc6a8nt / mutant zebrafish hearts at 6 mpf 8 mpf rep1     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP547192     L1EHF0600992--Type2B_1.R1.raw.fastq.gz L1EHF0600992--Type2B_1.R2.raw.fastq.gz fastq fastq 8173656576.0 27065088.0 L1EHF0600992 Type2B 1.R1.raw.fastq.gz 0:151 1:151 A:2108108352;C:1972206034;G:2007561479;T:2085759073;N:21638 151 151     2108108352 1972206034 2007561479 2085759073 21638 SRX26848530 SRS23332376     Guangdong Cardiovascular Institute                       B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2024-11-24 Adult Adult Heart Cardiovascular System
34202 34202 SRR31479990 SRX26848529 SRS23332375 SRP547192 PRJNA1189851 Pseudoxanthoma elasticum PXE disease model sequencing in zebrafish bone and scale PRJNA1189851 Other PXE is a rare multisystem disorder caused by mutations in the ABCC6/MRP6 gene associated with adverse clinical outcomes in cardiovascular diseases. However the underlying cardiovascular pathological mechanisms remain elusive. Transcriptomic analysis reveals change in the expression of genes related to the bone and scale.       RNA Seq for Type1B 2 abcc6a8nt / mutant zebrafish b1 at 6 mpf 8 mpf rep1 Type1B 2   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:6 month 8 month|dev stage:not applicable|collection date:2023 05 04|geo loc name:not applicable|sex:male and female|tissue:B1|BioSampleModel:Model organism or animal                 RNA Seq for Type1B 2 Type1B 2 Type1B 2 RNA Seq for abcc6a8nt / mutant zebrafish hearts at 6 mpf 8 mpf rep2     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP547192     L1EHF0600991--Type1B_2.R1.raw.fastq.gz L1EHF0600991--Type1B_2.R2.raw.fastq.gz fastq fastq 6856733934.0 22704417.0 L1EHF0600991 Type1B 2.R1.raw.fastq.gz 0:151 1:151 A:1819254779;C:1602255119;G:1640783411;T:1794422519;N:18106 151 151     1819254779 1602255119 1640783411 1794422519 18106 SRX26848529 SRS23332375     Guangdong Cardiovascular Institute                       B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2024-11-24 Adult Adult Heart Cardiovascular System
34203 34203 SRR31479991 SRX26848528 SRS23332374 SRP547192 PRJNA1189851 Pseudoxanthoma elasticum PXE disease model sequencing in zebrafish bone and scale PRJNA1189851 Other PXE is a rare multisystem disorder caused by mutations in the ABCC6/MRP6 gene associated with adverse clinical outcomes in cardiovascular diseases. However the underlying cardiovascular pathological mechanisms remain elusive. Transcriptomic analysis reveals change in the expression of genes related to the bone and scale.       RNA Seq for Type1B 1 abcc6a8nt / mutant zebrafish b1 at 6 mpf 8 mpf rep1 Type1B 1   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:6 month 8 month|dev stage:not applicable|collection date:2023 05 03|geo loc name:not applicable|sex:male and female|tissue:B1|BioSampleModel:Model organism or animal                 RNA Seq for Type1B 1 Type1B 1 Type1B 1 RNA Seq for abcc6a8nt / mutant zebrafish hearts at 6 mpf 8 mpf rep1     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP547192     L1EHF0600990--Type1B_1.R1.raw.fastq.gz L1EHF0600990--Type1B_1.R2.raw.fastq.gz fastq fastq 8199716760.0 27151380.0 L1EHF0600990 Type1B 1.R1.raw.fastq.gz 0:151 1:151 A:2143640345;C:1952882726;G:1983987224;T:2119185119;N:21346 151 151     2143640345 1952882726 1983987224 2119185119 21346 SRX26848528 SRS23332374     Guangdong Cardiovascular Institute                       B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2024-11-24 Adult Adult Heart Cardiovascular System
34204 34204 SRR31479992 SRX26848527 SRS23332373 SRP547192 PRJNA1189851 Pseudoxanthoma elasticum PXE disease model sequencing in zebrafish bone and scale PRJNA1189851 Other PXE is a rare multisystem disorder caused by mutations in the ABCC6/MRP6 gene associated with adverse clinical outcomes in cardiovascular diseases. However the underlying cardiovascular pathological mechanisms remain elusive. Transcriptomic analysis reveals change in the expression of genes related to the bone and scale.       RNA Seq for WT 2B abcc6a8nt / mutant zebrafish b1 at 6 mpf 8 mpf rep2 WT 2B   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:6 month 8 month|dev stage:not applicable|collection date:2023 05 02|geo loc name:not applicable|sex:male and female|tissue:B1|BioSampleModel:Model organism or animal                 RNA Seq for WT 2B WT 2B WT 2B RNA Seq for abcc6a8nt / mutant zebrafish hearts at 6 mpf 8 mpf rep2     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP547192     L1EHF0600989--WT_2B.R1.raw.fastq.gz L1EHF0600989--WT_2B.R2.raw.fastq.gz fastq fastq 7647939204.0 25324302.0 L1EHF0600989 WT 2B.R1.raw.fastq.gz 0:151 1:151 A:1987849331;C:1831909030;G:1863287600;T:1964873314;N:19929 151 151     1987849331 1831909030 1863287600 1964873314 19929 SRX26848527 SRS23332373     Guangdong Cardiovascular Institute                       B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2024-11-24 Adult Adult Heart Cardiovascular System
34205 34205 SRR31479993 SRX26848526 SRS23332372 SRP547192 PRJNA1189851 Pseudoxanthoma elasticum PXE disease model sequencing in zebrafish bone and scale PRJNA1189851 Other PXE is a rare multisystem disorder caused by mutations in the ABCC6/MRP6 gene associated with adverse clinical outcomes in cardiovascular diseases. However the underlying cardiovascular pathological mechanisms remain elusive. Transcriptomic analysis reveals change in the expression of genes related to the bone and scale.       RNA Seq for WT 1B abcc6a8nt / mutant zebrafish b1 at 6 mpf 8 mpf rep1 WT 1B   strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:6 month 8 month|dev stage:not applicable|collection date:2023 05 01|geo loc name:not applicable|sex:male and female|tissue:B1|BioSampleModel:Model organism or animal                 RNA Seq for WT 1B WT 1B WT 1B RNA Seq for abcc6a8nt / mutant zebrafish hearts at 6 mpf 8 mpf rep1     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina HiSeq 4000   SRP547192     L1EHF0600988--WT_1B.R1.raw.fastq.gz L1EHF0600988--WT_1B.R2.raw.fastq.gz fastq fastq 6899503476.0 22846038.0 L1EHF0600988 WT 1B.R1.raw.fastq.gz 0:151 1:151 A:1785929563;C:1655039537;G:1701749629;T:1756766946;N:17801 151 151     1785929563 1655039537 1701749629 1756766946 17801 SRX26848526 SRS23332372     Guangdong Cardiovascular Institute                       B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2024-11-24 Adult Adult Heart Cardiovascular System
34593 34593 SRR32128857 SRX27475161 SRS23899211 SRP559934 PRJNA1215774 3 mpf dark reared zebrafish eye RNA sequencing PRJNA1215774 Other Outdoor time and light intensity are important emerging factors affecting myopia; however the underlying mechanisms remain unknown. To clarify the possible molecular mechanisms underlying myopia caused by dark environment 3 mpf zebrafish eye RNA sequencing was performed.         lighttreated4   strain:not applicable|isolate:Sun Yat sen University|breed:not applicable10|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:not applicable10|collection date:2021 04 16|geo loc name:China: GuangZhou|sex:not applicable|tissue:zebrafish10|isolation source:zebrafish10|BioSampleModel:Model organism or animal                 sample info library 10 library 10 DNA barcode10     WXS TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP559934     lighttreated4.read1.fastq.gz lighttreated4.read2.fastq.gz fastq fastq 6388100400.0 21293668.0 lighttreated4.read1.fastq.gz 0:150 1:150 A:1711345062;C:1474552325;G:1531680528;T:1670485285;N:37200 150 150     1711345062 1474552325 1531680528 1670485285 37200 SRX27475161 SRS23899211 SRA2060897 zhujiang hospital|ophthalmology zhujiang hospital                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2025-01-25 Undetermined Adult Undetermined Undetermined
34594 34594 SRR32128858 SRX27475160 SRS23899210 SRP559934 PRJNA1215774 3 mpf dark reared zebrafish eye RNA sequencing PRJNA1215774 Other Outdoor time and light intensity are important emerging factors affecting myopia; however the underlying mechanisms remain unknown. To clarify the possible molecular mechanisms underlying myopia caused by dark environment 3 mpf zebrafish eye RNA sequencing was performed.         lighttreated3   strain:not applicable|isolate:Sun Yat sen University|breed:not applicable9|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:not applicable9|collection date:2021 04 16|geo loc name:China: GuangZhou|sex:not applicable|tissue:zebrafish9|isolation source:zebrafish9|BioSampleModel:Model organism or animal                 sample info library 9 library 9 DNA barcode9     WXS TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP559934     lighttreated3.read1.fastq.gz lighttreated3.read2.fastq.gz fastq fastq 7919383200.0 26397944.0 lighttreated3.read1.fastq.gz 0:150 1:150 A:2135212601;C:1813586654;G:1892878979;T:2077658764;N:46202 150 150     2135212601 1813586654 1892878979 2077658764 46202 SRX27475160 SRS23899210 SRA2060897 zhujiang hospital|ophthalmology zhujiang hospital                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2025-01-25 Undetermined Adult Undetermined Undetermined
34595 34595 SRR32128859 SRX27475159 SRS23899209 SRP559934 PRJNA1215774 3 mpf dark reared zebrafish eye RNA sequencing PRJNA1215774 Other Outdoor time and light intensity are important emerging factors affecting myopia; however the underlying mechanisms remain unknown. To clarify the possible molecular mechanisms underlying myopia caused by dark environment 3 mpf zebrafish eye RNA sequencing was performed.         lighttreated2   strain:not applicable|isolate:Sun Yat sen University|breed:not applicable8|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:not applicable8|collection date:2021 04 16|geo loc name:China: GuangZhou|sex:not applicable|tissue:zebrafish8|isolation source:zebrafish8|BioSampleModel:Model organism or animal                 sample info library 8 library 8 DNA barcode8     WXS TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP559934     lighttreated2.read1.fastq.gz lighttreated2.read2.fastq.gz fastq fastq 7060994100.0 23536647.0 lighttreated2.read1.fastq.gz 0:150 1:150 A:1921099545;C:1595276449;G:1668657714;T:1875918159;N:42233 150 150     1921099545 1595276449 1668657714 1875918159 42233 SRX27475159 SRS23899209 SRA2060897 zhujiang hospital|ophthalmology zhujiang hospital                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2025-01-25 Undetermined Adult Undetermined Undetermined
34596 34596 SRR32128860 SRX27475158 SRS23899208 SRP559934 PRJNA1215774 3 mpf dark reared zebrafish eye RNA sequencing PRJNA1215774 Other Outdoor time and light intensity are important emerging factors affecting myopia; however the underlying mechanisms remain unknown. To clarify the possible molecular mechanisms underlying myopia caused by dark environment 3 mpf zebrafish eye RNA sequencing was performed.         lighttreated1   strain:not applicable|isolate:Sun Yat sen University|breed:not applicable7|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:not applicable7|collection date:2021 04 16|geo loc name:China: GuangZhou|sex:not applicable|tissue:zebrafish7|isolation source:zebrafish7|BioSampleModel:Model organism or animal                 sample info library 7 library 7 DNA barcode7     WXS TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP559934     lighttreated1.read1.fastq.gz lighttreated1.read2.fastq.gz fastq fastq 6908625300.0 23028751.0 lighttreated1.read1.fastq.gz 0:150 1:150 A:1872190225;C:1565342714;G:1644929113;T:1826124355;N:38893 150 150     1872190225 1565342714 1644929113 1826124355 38893 SRX27475158 SRS23899208 SRA2060897 zhujiang hospital|ophthalmology zhujiang hospital                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2025-01-25 Undetermined Adult Undetermined Undetermined
34597 34597 SRR32128861 SRX27475157 SRS23899207 SRP559934 PRJNA1215774 3 mpf dark reared zebrafish eye RNA sequencing PRJNA1215774 Other Outdoor time and light intensity are important emerging factors affecting myopia; however the underlying mechanisms remain unknown. To clarify the possible molecular mechanisms underlying myopia caused by dark environment 3 mpf zebrafish eye RNA sequencing was performed.         darktreated6   strain:not applicable|isolate:Sun Yat sen University|breed:not applicable6|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:not applicable6|collection date:2021 04 16|geo loc name:China: GuangZhou|sex:not applicable|tissue:zebrafish6|isolation source:zebrafish6|BioSampleModel:Model organism or animal                 sample info library 6 library 6 DNA barcode6     WXS TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP559934     darktreated6.read1.fastq.gz darktreated6.read2.fastq.gz fastq fastq 8601630900.0 28672103.0 darktreated6.read1.fastq.gz 0:150 1:150 A:2318530970;C:1973292572;G:2040962638;T:2268796005;N:48715 150 150     2318530970 1973292572 2040962638 2268796005 48715 SRX27475157 SRS23899207 SRA2060897 zhujiang hospital|ophthalmology zhujiang hospital                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2025-01-25 Undetermined Adult Undetermined Undetermined
34598 34598 SRR32128862 SRX27475156 SRS23899206 SRP559934 PRJNA1215774 3 mpf dark reared zebrafish eye RNA sequencing PRJNA1215774 Other Outdoor time and light intensity are important emerging factors affecting myopia; however the underlying mechanisms remain unknown. To clarify the possible molecular mechanisms underlying myopia caused by dark environment 3 mpf zebrafish eye RNA sequencing was performed.         darktreated5   strain:not applicable|isolate:Sun Yat sen University|breed:not applicable5|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:not applicable5|collection date:2021 04 16|geo loc name:China: GuangZhou|sex:not applicable|tissue:zebrafish5|isolation source:zebrafish5|BioSampleModel:Model organism or animal                 sample info library 5 library 5 DNA barcode5     WXS TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP559934     darktreated5.read1.fastq.gz darktreated5.read2.fastq.gz fastq fastq 8265255300.0 27550851.0 darktreated5.read1.fastq.gz 0:150 1:150 A:2224219375;C:1898065838;G:1969603341;T:2173318912;N:47834 150 150     2224219375 1898065838 1969603341 2173318912 47834 SRX27475156 SRS23899206 SRA2060897 zhujiang hospital|ophthalmology zhujiang hospital                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2025-01-25 Undetermined Adult Undetermined Undetermined
34599 34599 SRR32128863 SRX27475155 SRS23899205 SRP559934 PRJNA1215774 3 mpf dark reared zebrafish eye RNA sequencing PRJNA1215774 Other Outdoor time and light intensity are important emerging factors affecting myopia; however the underlying mechanisms remain unknown. To clarify the possible molecular mechanisms underlying myopia caused by dark environment 3 mpf zebrafish eye RNA sequencing was performed.         darktreated4   strain:not applicable|isolate:Sun Yat sen University|breed:not applicable4|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:not applicable4|collection date:2021 04 16|geo loc name:China: GuangZhou|sex:not applicable|tissue:zebrafish4|isolation source:zebrafish4|BioSampleModel:Model organism or animal                 sample info library 4 library 4 DNA barcode4     WXS TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP559934     darktreated4.read1.fastq.gz darktreated4.read2.fastq.gz fastq fastq 8061663600.0 26872212.0 darktreated4.read1.fastq.gz 0:150 1:150 A:2171664867;C:1853256385;G:1909447014;T:2127248788;N:46546 150 150     2171664867 1853256385 1909447014 2127248788 46546 SRX27475155 SRS23899205 SRA2060897 zhujiang hospital|ophthalmology zhujiang hospital                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2025-01-25 Undetermined Adult Undetermined Undetermined
34600 34600 SRR32128864 SRX27475154 SRS23899204 SRP559934 PRJNA1215774 3 mpf dark reared zebrafish eye RNA sequencing PRJNA1215774 Other Outdoor time and light intensity are important emerging factors affecting myopia; however the underlying mechanisms remain unknown. To clarify the possible molecular mechanisms underlying myopia caused by dark environment 3 mpf zebrafish eye RNA sequencing was performed.         darktreated3   strain:not applicable|isolate:Sun Yat sen University|breed:not applicable3|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:not applicable3|collection date:2021 04 16|geo loc name:China: GuangZhou|sex:not applicable|tissue:zebrafish3|isolation source:zebrafish3|BioSampleModel:Model organism or animal                 sample info library 3 library 3 DNA barcode3     WXS TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP559934     darktreated3.read1.fastq.gz darktreated3.read2.fastq.gz fastq fastq 8287650300.0 27625501.0 darktreated3.read1.fastq.gz 0:150 1:150 A:2231337901;C:1902488349;G:1971440974;T:2182335741;N:47335 150 150     2231337901 1902488349 1971440974 2182335741 47335 SRX27475154 SRS23899204 SRA2060897 zhujiang hospital|ophthalmology zhujiang hospital                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2025-01-25 Undetermined Adult Undetermined Undetermined
34601 34601 SRR32128865 SRX27475153 SRS23899203 SRP559934 PRJNA1215774 3 mpf dark reared zebrafish eye RNA sequencing PRJNA1215774 Other Outdoor time and light intensity are important emerging factors affecting myopia; however the underlying mechanisms remain unknown. To clarify the possible molecular mechanisms underlying myopia caused by dark environment 3 mpf zebrafish eye RNA sequencing was performed.         lighttreated6   strain:not applicable|isolate:Sun Yat sen University|breed:not applicable12|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:not applicable12|collection date:2021 04 16|geo loc name:China: GuangZhou|sex:not applicable|tissue:zebrafish12|isolation source:zebrafish12|BioSampleModel:Model organism or animal                 sample info library 12 library 12 DNA barcode12     WXS TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP559934     lighttreated6.read1.fastq.gz lighttreated6.read2.fastq.gz fastq fastq 7610579400.0 25368598.0 lighttreated6.read1.fastq.gz 0:150 1:150 A:2063115765;C:1733106391;G:1795336188;T:2018975316;N:45740 150 150     2063115765 1733106391 1795336188 2018975316 45740 SRX27475153 SRS23899203 SRA2060897 zhujiang hospital|ophthalmology zhujiang hospital                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2025-01-25 Undetermined Adult Undetermined Undetermined
34602 34602 SRR32128866 SRX27475152 SRS23899202 SRP559934 PRJNA1215774 3 mpf dark reared zebrafish eye RNA sequencing PRJNA1215774 Other Outdoor time and light intensity are important emerging factors affecting myopia; however the underlying mechanisms remain unknown. To clarify the possible molecular mechanisms underlying myopia caused by dark environment 3 mpf zebrafish eye RNA sequencing was performed.         lighttreated5   strain:not applicable|isolate:Sun Yat sen University|breed:not applicable11|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:not applicable11|collection date:2021 04 16|geo loc name:China: GuangZhou|sex:not applicable|tissue:zebrafish11|isolation source:zebrafish11|BioSampleModel:Model organism or animal                 sample info library 11 library 11 DNA barcode11     WXS TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP559934     lighttreated5.read1.fastq.gz lighttreated5.read2.fastq.gz fastq fastq 6677234100.0 22257447.0 lighttreated5.read1.fastq.gz 0:150 1:150 A:1812295746;C:1506030273;G:1585674870;T:1773195250;N:37961 150 150     1812295746 1506030273 1585674870 1773195250 37961 SRX27475152 SRS23899202 SRA2060897 zhujiang hospital|ophthalmology zhujiang hospital                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2025-01-25 Undetermined Adult Undetermined Undetermined
34603 34603 SRR32128867 SRX27475151 SRS23899201 SRP559934 PRJNA1215774 3 mpf dark reared zebrafish eye RNA sequencing PRJNA1215774 Other Outdoor time and light intensity are important emerging factors affecting myopia; however the underlying mechanisms remain unknown. To clarify the possible molecular mechanisms underlying myopia caused by dark environment 3 mpf zebrafish eye RNA sequencing was performed.         darktreated2   strain:not applicable|isolate:Sun Yat sen University|breed:not applicable2|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:not applicable2|collection date:2021 04 16|geo loc name:China: GuangZhou|sex:not applicable|tissue:zebrafish2|isolation source:zebrafish2|BioSampleModel:Model organism or animal                 sample info library 2 library 2 DNA barcode2     WXS TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP559934     darktreated2.read1.fastq.gz darktreated2.read2.fastq.gz fastq fastq 8723972700.0 29079909.0 darktreated2.read1.fastq.gz 0:150 1:150 A:2341340036;C:2009282478;G:2082163796;T:2291135873;N:50517 150 150     2341340036 2009282478 2082163796 2291135873 50517 SRX27475151 SRS23899201 SRA2060897 zhujiang hospital|ophthalmology zhujiang hospital                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2025-01-25 Undetermined Adult Undetermined Undetermined
34604 34604 SRR32128868 SRX27475150 SRS23899200 SRP559934 PRJNA1215774 3 mpf dark reared zebrafish eye RNA sequencing PRJNA1215774 Other Outdoor time and light intensity are important emerging factors affecting myopia; however the underlying mechanisms remain unknown. To clarify the possible molecular mechanisms underlying myopia caused by dark environment 3 mpf zebrafish eye RNA sequencing was performed.         darktreated1   strain:not applicable|isolate:Sun Yat sen University|breed:not applicable1|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:not applicable1|collection date:2021 04 16|geo loc name:China: GuangZhou|sex:not applicable|tissue:zebrafish1|isolation source:zebrafish1|BioSampleModel:Model organism or animal                 sample info library 1 library 1 DNA barcode1     WXS TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq 6000   SRP559934     darktreated1.read1.fastq.gz darktreated1.read2.fastq.gz fastq fastq 7940928300.0 26469761.0 darktreated1.read1.fastq.gz 0:150 1:150 A:2133717650;C:1824526059;G:1895330033;T:2087310578;N:43980 150 150     2133717650 1824526059 1895330033 2087310578 43980 SRX27475150 SRS23899200 SRA2060897 zhujiang hospital|ophthalmology zhujiang hospital                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2025-01-25 Undetermined Adult Undetermined Undetermined
35992 35992 SRR33967648 SRX29166369 SRS25367088 SRP591856 PRJNA1256832 Danio rerio Raw sequence reads PRJNA1256832 Whole Genome Sequencing Effects of subchronic exposure to environmentally relevant concentrations of methomyl solution on the gene expression levels in the brain tissue of zebrafish         M50 5   ecotype:Wuxi|dev stage:adult|collection date:2023 11 10|geo loc name:China: Wuxi|sex:not collected|tissue:Brain|treatment:0.05 mg/L Methomyl exposure|replicate:replicate = biological replicate 5|BioSampleModel:Model organism or animal                 RNA seq of zebrafish M50 5 M50 5 Normal RNA seq of Brain     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP591856     M50_5_1.fq.gz M50_5_2.fq.gz fastq fastq 5682275100.0 18940917.0 M50 5 1.fq.gz 0:150 1:150 A:1475455936;C:1352416727;G:1390067010;T:1463846184;N:489243 150 150     1475455936 1352416727 1390067010 1463846184 489243 SRX29166369 SRS25367088 SRA2148393 Nanjing Agriculture University|Wuxi Fishery College Nanjing Agriculture University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2025-06-13 Adult Adult Brain Nervous System
35993 35993 SRR33967649 SRX29166368 SRS25367085 SRP591856 PRJNA1256832 Danio rerio Raw sequence reads PRJNA1256832 Whole Genome Sequencing Effects of subchronic exposure to environmentally relevant concentrations of methomyl solution on the gene expression levels in the brain tissue of zebrafish         M50 4   ecotype:Wuxi|dev stage:adult|collection date:2023 11 10|geo loc name:China: Wuxi|sex:not collected|tissue:Brain|treatment:0.05 mg/L Methomyl exposure|replicate:replicate = biological replicate 4|BioSampleModel:Model organism or animal                 RNA seq of zebrafish M50 4 M50 4 Normal RNA seq of Brain     RNA-Seq TRANSCRIPTOMIC PCR PAIRED ILLUMINA Illumina NovaSeq X Plus   SRP591856     M50_4_1.fq.gz M50_4_2.fq.gz fastq fastq 6862983600.0 22876612.0 M50 4 1.fq.gz 0:150 1:150 A:1826390013;C:1586928364;G:1633332758;T:1815810150;N:522315 150 150     1826390013 1586928364 1633332758 1815810150 522315 SRX29166368 SRS25367085 SRA2148393 Nanjing Agriculture University|Wuxi Fishery College Nanjing Agriculture University                       B B biological fallback assumption illumina novaseq_era unknown random_priming unknown bulk unknown unknown   China 2025-06-13 Adult Adult Brain Nervous 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");;