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
101,DRR189403,DRX179868,DRS200418,DRP003977,PRJDB4470,Gene expression analysis of the zebrafish brain,DRP003977,Other,Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.,,,,Telencephalon of adult zebrafrish  30 min post test session of 2 weeks memory test in non trace 2 Way Active Avoidance coditioning 3,SAMD00182246,,sample name:CSUS Tel 30 2w memory 3|genotype:wild type|tissue:brain,,,,,,,,,Illumina HiSeq 3000 sequencing of SAMD00182246,DRX179868,CSUS Tel 30 2w memory 3,1,SureSelect Strand Specific RNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 3000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP003977,Illumina HiSeq 3000 sequencing of SAMD00182246,,,,2791119960.0,77531110.0,DRR189403,0:36,A:685050951;C:641519684;G:664655385;T:799677669;N:216271,36,,,,685050951,641519684,664655385,799677669,216271,DRX179868,DRS200418,DRA008865,NIG|National Institute of Genetics (Japan),National Institute of Genetics (Japan),1,0.89653,,0.1773,,0.70725,,0.49873,,36,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2021-08-08,Larval,Larval,Brain,Nervous System
102,DRR189402,DRX179867,DRS200417,DRP003977,PRJDB4470,Gene expression analysis of the zebrafish brain,DRP003977,Other,Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.,,,,Telencephalon of adult zebrafrish  30 min post test session of 2 weeks memory test in non trace 2 Way Active Avoidance coditioning 2,SAMD00182245,,sample name:CSUS Tel 30 2w memory 2|genotype:wild type|tissue:brain,,,,,,,,,Illumina HiSeq 3000 sequencing of SAMD00182245,DRX179867,CSUS Tel 30 2w memory 2,1,SureSelect Strand Specific RNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 3000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP003977,Illumina HiSeq 3000 sequencing of SAMD00182245,,,,1505449224.0,41818034.0,DRR189402,0:36,A:369895057;C:346914787;G:358624651;T:429897489;N:117240,36,,,,369895057,346914787,358624651,429897489,117240,DRX179867,DRS200417,DRA008865,NIG|National Institute of Genetics (Japan),National Institute of Genetics (Japan),1,0.89514,,0.17677,,0.7025,,0.49571,,36,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2021-08-08,Larval,Larval,Brain,Nervous System
103,DRR189401,DRX179866,DRS200416,DRP003977,PRJDB4470,Gene expression analysis of the zebrafish brain,DRP003977,Other,Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.,,,,Telencephalon of adult zebrafrish  30 min post test session of 2 weeks memory test in non trace 2 Way Active Avoidance coditioning 1,SAMD00182244,,sample name:CSUS Tel 30 2w memory 1|genotype:wild type|tissue:brain,,,,,,,,,Illumina HiSeq 3000 sequencing of SAMD00182244,DRX179866,CSUS Tel 30 2w memory 1,1,SureSelect Strand Specific RNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 3000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP003977,Illumina HiSeq 3000 sequencing of SAMD00182244,,,,2088507024.0,58014084.0,DRR189401,0:36,A:516255405;C:478036869;G:496415722;T:597637091;N:161937,36,,,,516255405,478036869,496415722,597637091,161937,DRX179866,DRS200416,DRA008865,NIG|National Institute of Genetics (Japan),National Institute of Genetics (Japan),1,0.89533,,0.18553,,0.70981,,0.49554,,36,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2021-08-08,Larval,Larval,Brain,Nervous System
104,DRR189400,DRX179865,DRS200401,DRP003977,PRJDB4470,Gene expression analysis of the zebrafish brain,DRP003977,Other,Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.,,,,Telencephalon of adult zebrafrish  30 min post test session of 1 day memory test in non trace 2 Way Active Avoidance coditioning 3,SAMD00182243,,sample name:CSUS Tel 30 1d memory 3|genotype:wild type|tissue:brain,,,,,,,,,Illumina HiSeq 3000 sequencing of SAMD00182243,DRX179865,CSUS Tel 30 1d memory 3,1,SureSelect Strand Specific RNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 3000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP003977,Illumina HiSeq 3000 sequencing of SAMD00182243,,,,1340808120.0,37244670.0,DRR189400,0:36,A:330513975;C:306935584;G:320089399;T:383165274;N:103888,36,,,,330513975,306935584,320089399,383165274,103888,DRX179865,DRS200401,DRA008864,NIG|National Institute of Genetics (Japan),National Institute of Genetics (Japan),1,0.89272,,0.19494,,0.70335,,0.49456,,36,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2021-08-08,Adult,Adult,Brain,Nervous System
105,DRR189399,DRX179864,DRS200400,DRP003977,PRJDB4470,Gene expression analysis of the zebrafish brain,DRP003977,Other,Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.,,,,Telencephalon of adult zebrafrish  30 min post test session of 1 day memory test in non trace 2 Way Active Avoidance coditioning 2,SAMD00182242,,sample name:CSUS Tel 30 1d memory 2|genotype:wild type|tissue:brain,,,,,,,,,Illumina HiSeq 3000 sequencing of SAMD00182242,DRX179864,CSUS Tel 30 1d memory 2,1,SureSelect Strand Specific RNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 3000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP003977,Illumina HiSeq 3000 sequencing of SAMD00182242,,,,1279740096.0,35548336.0,DRR189399,0:36,A:314850837;C:294188093;G:304654881;T:365946483;N:99802,36,,,,314850837,294188093,304654881,365946483,99802,DRX179864,DRS200400,DRA008864,NIG|National Institute of Genetics (Japan),National Institute of Genetics (Japan),1,0.89485,,0.18205,,0.70593,,0.49333,,36,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2021-08-08,Adult,Adult,Brain,Nervous System
106,DRR189398,DRX179863,DRS200399,DRP003977,PRJDB4470,Gene expression analysis of the zebrafish brain,DRP003977,Other,Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.,,,,Telencephalon of adult zebrafrish  30 min post test session of 1 day memory test in non trace 2 Way Active Avoidance coditioning 1,SAMD00182241,,sample name:CSUS Tel 30 1d memory 1|genotype:wild type|tissue:brain,,,,,,,,,Illumina HiSeq 3000 sequencing of SAMD00182241,DRX179863,CSUS Tel 30 1d memory 1,1,SureSelect Strand Specific RNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 3000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP003977,Illumina HiSeq 3000 sequencing of SAMD00182241,,,,3012353100.0,83676475.0,DRR189398,0:36,A:740795057;C:693120664;G:717419185;T:860784745;N:233449,36,,,,740795057,693120664,717419185,860784745,233449,DRX179863,DRS200399,DRA008864,NIG|National Institute of Genetics (Japan),National Institute of Genetics (Japan),1,0.89676,,0.1791,,0.70569,,0.49835,,36,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2021-08-08,Adult,Adult,Brain,Nervous System
107,DRR189397,DRX179862,DRS200428,DRP003977,PRJDB4470,Gene expression analysis of the zebrafish brain,DRP003977,Other,Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.,,,,Telencephalon of adult zebrafrish  60 min post exposure to the conditioning tank 3,SAMD00182240,,sample name:Cont Tel 60 3|genotype:wild type|tissue:brain,,,,,,,,,Illumina HiSeq 3000 sequencing of SAMD00182240,DRX179862,Cont Tel 60 3,1,SureSelect Strand Specific RNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 3000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP003977,Illumina HiSeq 3000 sequencing of SAMD00182240,,,,5590147750.0,111802955.0,DRR189397,0:50,A:1365131560;C:1269631295;G:1366791321;T:1588422020;N:171554,50,,,,1365131560,1269631295,1366791321,1588422020,171554,DRX179862,DRS200428,DRA008863,NIG|National Institute of Genetics (Japan),National Institute of Genetics (Japan),1,0.89334,,0.16354,,0.7011,,0.49383,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2021-08-08,Adult,Adult,Brain,Nervous System
108,DRR189396,DRX179861,DRS200427,DRP003977,PRJDB4470,Gene expression analysis of the zebrafish brain,DRP003977,Other,Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.,,,,Telencephalon of adult zebrafrish  60 min post exposure to the conditioning tank 2,SAMD00182239,,sample name:Cont Tel 60 2|genotype:wild type|tissue:brain,,,,,,,,,Illumina HiSeq 3000 sequencing of SAMD00182239,DRX179861,Cont Tel 60 2,1,SureSelect Strand Specific RNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 3000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP003977,Illumina HiSeq 3000 sequencing of SAMD00182239,,,,6429019650.0,128580393.0,DRR189396,0:50,A:1570141412;C:1457539089;G:1572785681;T:1828358007;N:195461,50,,,,1570141412,1457539089,1572785681,1828358007,195461,DRX179861,DRS200427,DRA008863,NIG|National Institute of Genetics (Japan),National Institute of Genetics (Japan),1,0.89595,,0.16204,,0.70743,,0.49805,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2021-08-08,Adult,Adult,Brain,Nervous System
109,DRR189395,DRX179860,DRS200426,DRP003977,PRJDB4470,Gene expression analysis of the zebrafish brain,DRP003977,Other,Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.,,,,Telencephalon of adult zebrafrish  60 min post exposure to the conditioning tank 1,SAMD00182238,,sample name:Cont Tel 60 1|genotype:wild type|tissue:brain,,,,,,,,,Illumina HiSeq 3000 sequencing of SAMD00182238,DRX179860,Cont Tel 60 1,1,SureSelect Strand Specific RNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 3000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP003977,Illumina HiSeq 3000 sequencing of SAMD00182238,,,,6644185850.0,132883717.0,DRR189395,0:50,A:1637322491;C:1498943556;G:1616212676;T:1891505597;N:201530,50,,,,1637322491,1498943556,1616212676,1891505597,201530,DRX179860,DRS200426,DRA008863,NIG|National Institute of Genetics (Japan),National Institute of Genetics (Japan),1,0.89573,,0.16421,,0.7037,,0.49805,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2021-08-08,Adult,Adult,Brain,Nervous System
110,DRR189394,DRX179859,DRS200407,DRP003977,PRJDB4470,Gene expression analysis of the zebrafish brain,DRP003977,Other,Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.,,,,Telencephalon of adult zebrafrish  60 min post light stimulation in the conditioning tank 3,SAMD00182237,,sample name:CS Tel 60 3|genotype:wild type|tissue:brain,,,,,,,,,Illumina HiSeq 3000 sequencing of SAMD00182237,DRX179859,CS Tel 60 3,1,SureSelect Strand Specific RNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 3000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP003977,Illumina HiSeq 3000 sequencing of SAMD00182237,,,,1387078956.0,38529971.0,DRR189394,0:36,A:333990578;C:315361737;G:337599372;T:400057968;N:69301,36,,,,333990578,315361737,337599372,400057968,69301,DRX179859,DRS200407,DRA008862,NIG|National Institute of Genetics (Japan),National Institute of Genetics (Japan),1,0.88133,,0.18418,,0.70747,,0.4971,,36,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2021-08-08,Adult,Adult,Brain,Nervous System
111,DRR189393,DRX179858,DRS200406,DRP003977,PRJDB4470,Gene expression analysis of the zebrafish brain,DRP003977,Other,Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.,,,,Telencephalon of adult zebrafrish  60 min post light stimulation in the conditioning tank 2,SAMD00182236,,sample name:CS Tel 60 2|genotype:wild type|tissue:brain,,,,,,,,,Illumina HiSeq 3000 sequencing of SAMD00182236,DRX179858,CS Tel 60 2,1,SureSelect Strand Specific RNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 3000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP003977,Illumina HiSeq 3000 sequencing of SAMD00182236,,,,537029424.0,14917484.0,DRR189393,0:36,A:127421487;C:122494467;G:132164579;T:154921150;N:27741,36,,,,127421487,122494467,132164579,154921150,27741,DRX179858,DRS200406,DRA008862,NIG|National Institute of Genetics (Japan),National Institute of Genetics (Japan),1,0.88264,,0.17793,,0.7083,,0.49123,,36,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2021-08-08,Adult,Adult,Brain,Nervous System
112,DRR189392,DRX179857,DRS200405,DRP003977,PRJDB4470,Gene expression analysis of the zebrafish brain,DRP003977,Other,Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.,,,,Telencephalon of adult zebrafrish  60 min post light stimulation in the conditioning tank 1,SAMD00182235,,sample name:CS Tel 60 1|genotype:wild type|tissue:brain,,,,,,,,,Illumina HiSeq 3000 sequencing of SAMD00182235,DRX179857,CS Tel 60 1,1,SureSelect Strand Specific RNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 3000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP003977,Illumina HiSeq 3000 sequencing of SAMD00182235,,,,3163663656.0,87879546.0,DRR189392,0:36,A:766146692;C:714108562;G:771785405;T:911468887;N:154110,36,,,,766146692,714108562,771785405,911468887,154110,DRX179857,DRS200405,DRA008862,NIG|National Institute of Genetics (Japan),National Institute of Genetics (Japan),1,0.88114,,0.1803,,0.7052,,0.4917,,36,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2021-08-08,Adult,Adult,Brain,Nervous System
113,DRR189391,DRX179856,DRS200404,DRP003977,PRJDB4470,Gene expression analysis of the zebrafish brain,DRP003977,Other,Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.,,,,Telencephalon of adult zebrafrish  60 min post electrical shock delivery in the conditioning tank 3,SAMD00182234,,sample name:US Tel 60 3|genotype:wild type|tissue:brain,,,,,,,,,Illumina HiSeq 3000 sequencing of SAMD00182234,DRX179856,US Tel 60 3,1,SureSelect Strand Specific RNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 3000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP003977,Illumina HiSeq 3000 sequencing of SAMD00182234,,,,1535884704.0,42663464.0,DRR189391,0:36,A:367444721;C:350978310;G:375524359;T:441859454;N:77860,36,,,,367444721,350978310,375524359,441859454,77860,DRX179856,DRS200404,DRA008861,NIG|National Institute of Genetics (Japan),National Institute of Genetics (Japan),1,0.88103,,0.1788,,0.7082,,0.49462,,36,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2021-08-08,Adult,Adult,Brain,Nervous System
114,DRR189390,DRX179855,DRS200403,DRP003977,PRJDB4470,Gene expression analysis of the zebrafish brain,DRP003977,Other,Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.,,,,Telencephalon of adult zebrafrish  60 min post electrical shock delivery in the conditioning tank 2,SAMD00182233,,sample name:US Tel 60 2|genotype:wild type|tissue:brain,,,,,,,,,Illumina HiSeq 3000 sequencing of SAMD00182233,DRX179855,US Tel 60 2,1,SureSelect Strand Specific RNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 3000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP003977,Illumina HiSeq 3000 sequencing of SAMD00182233,,,,737309916.0,20480831.0,DRR189390,0:36,A:176982713;C:168284406;G:179343270;T:212662841;N:36686,36,,,,176982713,168284406,179343270,212662841,36686,DRX179855,DRS200403,DRA008861,NIG|National Institute of Genetics (Japan),National Institute of Genetics (Japan),1,0.87995,,0.18515,,0.70816,,0.49393,,36,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2021-08-08,Adult,Adult,Brain,Nervous System
115,DRR189389,DRX179854,DRS200402,DRP003977,PRJDB4470,Gene expression analysis of the zebrafish brain,DRP003977,Other,Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.,,,,Telencephalon of adult zebrafrish  60 min post electrical shock delivery in the conditioning tank 1,SAMD00182232,,sample name:US Tel 60 1|genotype:wild type|tissue:brain,,,,,,,,,Illumina HiSeq 3000 sequencing of SAMD00182232,DRX179854,US Tel 60 1,1,SureSelect Strand Specific RNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 3000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP003977,Illumina HiSeq 3000 sequencing of SAMD00182232,,,,595837404.0,16551039.0,DRR189389,0:36,A:143956004;C:134783754;G:145443580;T:171624939;N:29127,36,,,,143956004,134783754,145443580,171624939,29127,DRX179854,DRS200402,DRA008861,NIG|National Institute of Genetics (Japan),National Institute of Genetics (Japan),1,0.87682,,0.18328,,0.70309,,0.49081,,36,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2021-08-08,Adult,Adult,Brain,Nervous System
116,DRR189388,DRX179853,DRS200452,DRP003977,PRJDB4470,Gene expression analysis of the zebrafish brain,DRP003977,Other,Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.,,,,Telencephalon of adult zebrafrish  60 min post light and electrical shock association in non trace 2 Way Active Avoidance coditioning 3,SAMD00182231,,sample name:CSUS Tel 60 3|genotype:wild type|tissue:brain,,,,,,,,,Illumina HiSeq 3000 sequencing of SAMD00182231,DRX179853,CSUS Tel 60 3,1,SureSelect Strand Specific RNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 3000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP003977,Illumina HiSeq 3000 sequencing of SAMD00182231,,,,608050044.0,16890279.0,DRR189388,0:36,A:145025778;C:137906052;G:149542672;T:175545338;N:30204,36,,,,145025778,137906052,149542672,175545338,30204,DRX179853,DRS200452,DRA008860,NIG|National Institute of Genetics (Japan),National Institute of Genetics (Japan),1,0.87983,,0.18602,,0.70445,,0.49195,,36,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2021-08-08,Adult,Adult,Brain,Nervous System
117,DRR189387,DRX179852,DRS200451,DRP003977,PRJDB4470,Gene expression analysis of the zebrafish brain,DRP003977,Other,Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.,,,,Telencephalon of adult zebrafrish  60 min post light and electrical shock association in non trace 2 Way Active Avoidance coditioning 2,SAMD00182230,,sample name:CSUS Tel 60 2|genotype:wild type|tissue:brain,,,,,,,,,Illumina HiSeq 3000 sequencing of SAMD00182230,DRX179852,CSUS Tel 60 2,1,SureSelect Strand Specific RNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 3000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP003977,Illumina HiSeq 3000 sequencing of SAMD00182230,,,,777589452.0,21599707.0,DRR189387,0:36,A:185463269;C:177742981;G:190443063;T:223900096;N:40043,36,,,,185463269,177742981,190443063,223900096,40043,DRX179852,DRS200451,DRA008860,NIG|National Institute of Genetics (Japan),National Institute of Genetics (Japan),1,0.88331,,0.17918,,0.70516,,0.48956,,36,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2021-08-08,Adult,Adult,Brain,Nervous System
118,DRR189386,DRX179851,DRS200450,DRP003977,PRJDB4470,Gene expression analysis of the zebrafish brain,DRP003977,Other,Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.,,,,Telencephalon of adult zebrafrish  60 min post light and electrical shock association in non trace 2 Way Active Avoidance coditioning 1,SAMD00182229,,sample name:CSUS Tel 60 1|genotype:wild type|tissue:brain,,,,,,,,,Illumina HiSeq 3000 sequencing of SAMD00182229,DRX179851,CSUS Tel 60 1,1,SureSelect Strand Specific RNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 3000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP003977,Illumina HiSeq 3000 sequencing of SAMD00182229,,,,2738622348.0,76072843.0,DRR189386,0:36,A:662989485;C:622023190;G:663013857;T:790459930;N:135886,36,,,,662989485,622023190,663013857,790459930,135886,DRX179851,DRS200450,DRA008860,NIG|National Institute of Genetics (Japan),National Institute of Genetics (Japan),1,0.87743,,0.19164,,0.70025,,0.49073,,36,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2021-08-08,Adult,Adult,Brain,Nervous System
119,DRR189385,DRX179850,DRS200435,DRP003977,PRJDB4470,Gene expression analysis of the zebrafish brain,DRP003977,Other,Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.,,,,Telencephalon of EMX3  /  adult zebrafish 3,SAMD00182228,,sample name:Emx3     Adult Tel 3|genotype:Emx3 / |tissue:brain,,,,,,,,,Illumina HiSeq 3000 sequencing of SAMD00182228,DRX179850,Emx3 /  Adult Tel 3,1,SureSelect Strand Specific RNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 3000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP003977,Illumina HiSeq 3000 sequencing of SAMD00182228,,,,1323636552.0,36767682.0,DRR189385,0:36,A:309582925;C:310206951;G:325673647;T:378136039;N:36990,36,,,,309582925,310206951,325673647,378136039,36990,DRX179850,DRS200435,DRA008859,NIG|National Institute of Genetics (Japan),National Institute of Genetics (Japan),1,0.8932,,0.19244,,0.71334,,0.50591,,36,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2021-08-08,Adult,Adult,Brain,Nervous System
120,DRR189384,DRX179849,DRS200434,DRP003977,PRJDB4470,Gene expression analysis of the zebrafish brain,DRP003977,Other,Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.,,,,Telencephalon of EMX3  /  adult zebrafish 2,SAMD00182227,,sample name:Emx3     Adult Tel 2|genotype:Emx3 / |tissue:brain,,,,,,,,,Illumina HiSeq 3000 sequencing of SAMD00182227,DRX179849,Emx3 /  Adult Tel 2,1,SureSelect Strand Specific RNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 3000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP003977,Illumina HiSeq 3000 sequencing of SAMD00182227,,,,2994105168.0,83169588.0,DRR189384,0:36,A:709730692;C:691531995;G:727245229;T:865514929;N:82323,36,,,,709730692,691531995,727245229,865514929,82323,DRX179849,DRS200434,DRA008859,NIG|National Institute of Genetics (Japan),National Institute of Genetics (Japan),1,0.90382,,0.1826,,0.70197,,0.49719,,36,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2021-08-08,Adult,Adult,Brain,Nervous System
121,DRR189383,DRX179848,DRS200433,DRP003977,PRJDB4470,Gene expression analysis of the zebrafish brain,DRP003977,Other,Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.,,,,Telencephalon of EMX3  /  adult zebrafish 1,SAMD00182226,,sample name:Emx3     Adult Tel 1|genotype:Emx3 / |tissue:brain,,,,,,,,,Illumina HiSeq 3000 sequencing of SAMD00182226,DRX179848,Emx3 /  Adult Tel 1,1,SureSelect Strand Specific RNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 3000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP003977,Illumina HiSeq 3000 sequencing of SAMD00182226,,,,1151464896.0,31985136.0,DRR189383,0:36,A:272427216;C:266708394;G:280781178;T:331515997;N:32111,36,,,,272427216,266708394,280781178,331515997,32111,DRX179848,DRS200433,DRA008859,NIG|National Institute of Genetics (Japan),National Institute of Genetics (Japan),1,0.89942,,0.17402,,0.70364,,0.49438,,36,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2021-08-08,Adult,Adult,Brain,Nervous System
122,DRR189382,DRX179847,DRS200421,DRP003977,PRJDB4470,Gene expression analysis of the zebrafish brain,DRP003977,Other,Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.,,,,Telencephalon of wild type adult zebrafish 3,SAMD00182225,,sample name:WT Adult Tel 3|genotype:wild type|tissue:brain,,,,,,,,,Illumina HiSeq 3000 sequencing of SAMD00182225,DRX179847,WT Adult Tel 3,1,SureSelect Strand Specific RNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 3000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP003977,Illumina HiSeq 3000 sequencing of SAMD00182225,,,,2837488824.0,78819134.0,DRR189382,0:36,A:678395895;C:655098137;G:687520693;T:816395518;N:78581,36,,,,678395895,655098137,687520693,816395518,78581,DRX179847,DRS200421,DRA008858,NIG|National Institute of Genetics (Japan),National Institute of Genetics (Japan),1,0.89483,,0.18623,,0.70544,,0.49839,,36,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2021-08-08,Adult,Adult,Brain,Nervous System
123,DRR189381,DRX179846,DRS200420,DRP003977,PRJDB4470,Gene expression analysis of the zebrafish brain,DRP003977,Other,Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.,,,,Telencephalon of wild type adult zebrafish 2,SAMD00182224,,sample name:WT Adult Tel 2|genotype:wild type|tissue:brain,,,,,,,,,Illumina HiSeq 3000 sequencing of SAMD00182224,DRX179846,WT Adult Tel 2,1,SureSelect Strand Specific RNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 3000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP003977,Illumina HiSeq 3000 sequencing of SAMD00182224,,,,1456800264.0,40466674.0,DRR189381,0:36,A:345320431;C:336838149;G:356264798;T:418336552;N:40334,36,,,,345320431,336838149,356264798,418336552,40334,DRX179846,DRS200420,DRA008858,NIG|National Institute of Genetics (Japan),National Institute of Genetics (Japan),1,0.89496,,0.18691,,0.70802,,0.49721,,36,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2021-08-08,Adult,Adult,Brain,Nervous System
124,DRR189380,DRX179845,DRS200419,DRP003977,PRJDB4470,Gene expression analysis of the zebrafish brain,DRP003977,Other,Gene expression profiling by RNA seq of specific regions and subpopulations of neurons in the zebrafish brain that control behaviors.,,,,Telencephalon of wild type adult zebrafish 1,SAMD00182223,,sample name:WT Adult Tel 1|genotype:wild type|tissue:brain,,,,,,,,,Illumina HiSeq 3000 sequencing of SAMD00182223,DRX179845,WT Adult Tel 1,1,SureSelect Strand Specific RNA Library Prep Kit,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 3000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>36</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,DRP003977,Illumina HiSeq 3000 sequencing of SAMD00182223,,,,2533282452.0,70368957.0,DRR189380,0:36,A:602595083;C:585466052;G:616064286;T:729086926;N:70105,36,,,,602595083,585466052,616064286,729086926,70105,DRX179845,DRS200419,DRA008858,NIG|National Institute of Genetics (Japan),National Institute of Genetics (Japan),1,0.89412,,0.19005,,0.70816,,0.49843,,36,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Japan,2021-08-08,Adult,Adult,Brain,Nervous System
11711,ERR11282347,ERX10689990,ERS15395535,ERP146895,PRJEB61813,RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,E-MTAB-12901,Other,The ATP binding cassette subfamily B member 1 ABCB1  encoding a multidrug transporter P glycoprotein  plays a critical role in the efflux of xenobiotics in humans and is implicated in cancer resistance to chemotherapy—however  little information regarding Pgp at the zebrafish. In addition  to study the function of Pgp in the zebrafish brain in the aging process  we performed RNA seq using brain tissue of WT and abcb4 knockout zebrafish at different ages  such as 2 month and 30 month.,ENA FIRST PUBLIC:2023 07 14|ENA LAST UPDATE:2023 07 14,,Protocols: brain tissue were dissected from zebrafish and snap frozen until RNA isolation Trizol + zymo RNA clean column kit TruSeq RNA sample prep kit Illumina to prepare cDNA libraries post PolyA selection,Sample 8,SAMEA113400389,VANDERBILT UNIVERSITY,ENA FIRST PUBLIC:2023 07 14T00:23:41Z|ENA LAST UPDATE:2023 07 14T00:23:41Z|External Id:SAMEA113400389|INSDC center alias:VANDERBILT UNIVERSITY|INSDC center name:VANDERBILT UNIVERSITY|INSDC first public:2023 07 14T00:23:41Z|INSDC last update:2023 07 14T00:23:41Z|INSDC status:public|Submitter Id:E MTAB 12901:Sample 8|age:2|broker name:ArrayExpress|common name:zebrafish|developmental stage:adult|disease:normal|genotype:wild type genotype|organism part:brain|sample name:E MTAB 12901:Sample 8|scientific name:Danio rerio|sex:female|strain:AB,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing; RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,E MTAB 12901:Sample 8 p,Sample 8 p,RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,brain tissue were dissected from zebrafish and snap frozen until RNA isolation Trizol + zymo RNA clean column kit TruSeq RNA sample prep kit Illumina to prepare cDNA libraries post PolyA selection,Experimental Factor: genotype:wild type genotype,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,ERP146895,Illumina NovaSeq 6000 paired end sequencing; RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,ENA FIRST PUBLIC:2023 07 14|ENA LAST UPDATE:2023 07 14,8680-JP-0008_S1_L005_R2_001.fastq.gz 8680-JP-0008_S1_L005_R1_001.fastq.gz,fastq fastq,21919844332.0,72582266.0,E MTAB 12901:8680 JP 0008 S1 L005 R,0:151 1:151,A:5996325335;C:4770833694;G:5244802952;T:5876120950;N:31761401,151,151,,,5996325335,4770833694,5244802952,5876120950,31761401,ERX10689990,ERS15395535,ERA23235100,VANDERBILT UNIVERSITY|European Nucleotide Archive,VANDERBILT UNIVERSITY|European Nucleotide Archive,2,0.92572,0.92425,0.13427,0.13101,0.70086,0.70266,0.50868,0.50381,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,United States,2023-07-14,Adult,Adult,Brain,Nervous System
11712,ERR11282346,ERX10689989,ERS15395534,ERP146895,PRJEB61813,RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,E-MTAB-12901,Other,The ATP binding cassette subfamily B member 1 ABCB1  encoding a multidrug transporter P glycoprotein  plays a critical role in the efflux of xenobiotics in humans and is implicated in cancer resistance to chemotherapy—however  little information regarding Pgp at the zebrafish. In addition  to study the function of Pgp in the zebrafish brain in the aging process  we performed RNA seq using brain tissue of WT and abcb4 knockout zebrafish at different ages  such as 2 month and 30 month.,ENA FIRST PUBLIC:2023 07 14|ENA LAST UPDATE:2023 07 14,,Protocols: brain tissue were dissected from zebrafish and snap frozen until RNA isolation Trizol + zymo RNA clean column kit TruSeq RNA sample prep kit Illumina to prepare cDNA libraries post PolyA selection,Sample 7,SAMEA113400388,VANDERBILT UNIVERSITY,ENA FIRST PUBLIC:2023 07 14T00:23:41Z|ENA LAST UPDATE:2023 07 14T00:23:41Z|External Id:SAMEA113400388|INSDC center alias:VANDERBILT UNIVERSITY|INSDC center name:VANDERBILT UNIVERSITY|INSDC first public:2023 07 14T00:23:41Z|INSDC last update:2023 07 14T00:23:41Z|INSDC status:public|Submitter Id:E MTAB 12901:Sample 7|age:2|broker name:ArrayExpress|common name:zebrafish|developmental stage:adult|disease:normal|genotype:wild type genotype|organism part:brain|sample name:E MTAB 12901:Sample 7|scientific name:Danio rerio|sex:female|strain:AB,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing; RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,E MTAB 12901:Sample 7 p,Sample 7 p,RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,brain tissue were dissected from zebrafish and snap frozen until RNA isolation Trizol + zymo RNA clean column kit TruSeq RNA sample prep kit Illumina to prepare cDNA libraries post PolyA selection,Experimental Factor: genotype:wild type genotype,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,ERP146895,Illumina NovaSeq 6000 paired end sequencing; RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,ENA FIRST PUBLIC:2023 07 14|ENA LAST UPDATE:2023 07 14,8680-JP-0007_S1_L005_R2_001.fastq.gz 8680-JP-0007_S1_L005_R1_001.fastq.gz,fastq fastq,20351465316.0,67388958.0,E MTAB 12901:8680 JP 0007 S1 L005 R,0:151 1:151,A:5563989836;C:4461170993;G:4892290448;T:5404916249;N:29097790,151,151,,,5563989836,4461170993,4892290448,5404916249,29097790,ERX10689989,ERS15395534,ERA23235100,VANDERBILT UNIVERSITY|European Nucleotide Archive,VANDERBILT UNIVERSITY|European Nucleotide Archive,2,0.9267,0.9236,0.12782,0.12528,0.70307,0.70473,0.50799,0.50969,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,United States,2023-07-14,Adult,Adult,Brain,Nervous System
11713,ERR11282345,ERX10689988,ERS15395533,ERP146895,PRJEB61813,RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,E-MTAB-12901,Other,The ATP binding cassette subfamily B member 1 ABCB1  encoding a multidrug transporter P glycoprotein  plays a critical role in the efflux of xenobiotics in humans and is implicated in cancer resistance to chemotherapy—however  little information regarding Pgp at the zebrafish. In addition  to study the function of Pgp in the zebrafish brain in the aging process  we performed RNA seq using brain tissue of WT and abcb4 knockout zebrafish at different ages  such as 2 month and 30 month.,ENA FIRST PUBLIC:2023 07 14|ENA LAST UPDATE:2023 07 14,,Protocols: brain tissue were dissected from zebrafish and snap frozen until RNA isolation Trizol + zymo RNA clean column kit TruSeq RNA sample prep kit Illumina to prepare cDNA libraries post PolyA selection,Sample 6,SAMEA113400387,VANDERBILT UNIVERSITY,ENA FIRST PUBLIC:2023 07 14T00:23:41Z|ENA LAST UPDATE:2023 07 14T00:23:41Z|External Id:SAMEA113400387|INSDC center alias:VANDERBILT UNIVERSITY|INSDC center name:VANDERBILT UNIVERSITY|INSDC first public:2023 07 14T00:23:41Z|INSDC last update:2023 07 14T00:23:41Z|INSDC status:public|Submitter Id:E MTAB 12901:Sample 6|age:2|broker name:ArrayExpress|common name:zebrafish|developmental stage:adult|disease:normal|genotype:wild type genotype|organism part:brain|sample name:E MTAB 12901:Sample 6|scientific name:Danio rerio|sex:female|strain:AB,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing; RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,E MTAB 12901:Sample 6 p,Sample 6 p,RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,brain tissue were dissected from zebrafish and snap frozen until RNA isolation Trizol + zymo RNA clean column kit TruSeq RNA sample prep kit Illumina to prepare cDNA libraries post PolyA selection,Experimental Factor: genotype:wild type genotype,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,ERP146895,Illumina NovaSeq 6000 paired end sequencing; RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,ENA FIRST PUBLIC:2023 07 14|ENA LAST UPDATE:2023 07 14,8680-JP-0006_S1_L005_R2_001.fastq.gz 8680-JP-0006_S1_L005_R1_001.fastq.gz,fastq fastq,19220102648.0,63642724.0,E MTAB 12901:8680 JP 0006 S1 L005 R,0:151 1:151,A:5250476003;C:4214339559;G:4606611173;T:5120701154;N:27974759,151,151,,,5250476003,4214339559,4606611173,5120701154,27974759,ERX10689988,ERS15395533,ERA23235100,VANDERBILT UNIVERSITY|European Nucleotide Archive,VANDERBILT UNIVERSITY|European Nucleotide Archive,2,0.92441,0.92391,0.13718,0.13346,0.70281,0.7024,0.48155,0.49173,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,United States,2023-07-14,Adult,Adult,Brain,Nervous System
11714,ERR11282344,ERX10689987,ERS15395532,ERP146895,PRJEB61813,RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,E-MTAB-12901,Other,The ATP binding cassette subfamily B member 1 ABCB1  encoding a multidrug transporter P glycoprotein  plays a critical role in the efflux of xenobiotics in humans and is implicated in cancer resistance to chemotherapy—however  little information regarding Pgp at the zebrafish. In addition  to study the function of Pgp in the zebrafish brain in the aging process  we performed RNA seq using brain tissue of WT and abcb4 knockout zebrafish at different ages  such as 2 month and 30 month.,ENA FIRST PUBLIC:2023 07 14|ENA LAST UPDATE:2023 07 14,,Protocols: brain tissue were dissected from zebrafish and snap frozen until RNA isolation Trizol + zymo RNA clean column kit TruSeq RNA sample prep kit Illumina to prepare cDNA libraries post PolyA selection,Sample 3,SAMEA113400386,VANDERBILT UNIVERSITY,ENA FIRST PUBLIC:2023 07 14T00:23:41Z|ENA LAST UPDATE:2023 07 14T00:23:41Z|External Id:SAMEA113400386|INSDC center alias:VANDERBILT UNIVERSITY|INSDC center name:VANDERBILT UNIVERSITY|INSDC first public:2023 07 14T00:23:41Z|INSDC last update:2023 07 14T00:23:41Z|INSDC status:public|Submitter Id:E MTAB 12901:Sample 3|age:30|broker name:ArrayExpress|common name:zebrafish|developmental stage:adult|disease:normal|genotype:wild type genotype|organism part:brain|sample name:E MTAB 12901:Sample 3|scientific name:Danio rerio|sex:female|strain:AB,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing; RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,E MTAB 12901:Sample 3 p,Sample 3 p,RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,brain tissue were dissected from zebrafish and snap frozen until RNA isolation Trizol + zymo RNA clean column kit TruSeq RNA sample prep kit Illumina to prepare cDNA libraries post PolyA selection,Experimental Factor: genotype:wild type genotype,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,ERP146895,Illumina NovaSeq 6000 paired end sequencing; RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,ENA FIRST PUBLIC:2023 07 14|ENA LAST UPDATE:2023 07 14,8680-JP-0003_S1_L005_R1_001.fastq.gz 8680-JP-0003_S1_L005_R2_001.fastq.gz,fastq fastq,18624364462.0,61670081.0,E MTAB 12901:8680 JP 0003 S1 L005 R,0:151 1:151,A:5114421711;C:4075705896;G:4436341056;T:4970953410;N:26942389,151,151,,,5114421711,4075705896,4436341056,4970953410,26942389,ERX10689987,ERS15395532,ERA23235100,VANDERBILT UNIVERSITY|European Nucleotide Archive,VANDERBILT UNIVERSITY|European Nucleotide Archive,2,0.92553,0.92378,0.13069,0.12709,0.69988,0.70258,0.4969,0.51157,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,United States,2023-07-14,Adult,Adult,Brain,Nervous System
11715,ERR11282343,ERX10689986,ERS15395531,ERP146895,PRJEB61813,RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,E-MTAB-12901,Other,The ATP binding cassette subfamily B member 1 ABCB1  encoding a multidrug transporter P glycoprotein  plays a critical role in the efflux of xenobiotics in humans and is implicated in cancer resistance to chemotherapy—however  little information regarding Pgp at the zebrafish. In addition  to study the function of Pgp in the zebrafish brain in the aging process  we performed RNA seq using brain tissue of WT and abcb4 knockout zebrafish at different ages  such as 2 month and 30 month.,ENA FIRST PUBLIC:2023 07 14|ENA LAST UPDATE:2023 07 14,,Protocols: brain tissue were dissected from zebrafish and snap frozen until RNA isolation Trizol + zymo RNA clean column kit TruSeq RNA sample prep kit Illumina to prepare cDNA libraries post PolyA selection,Sample 2,SAMEA113400385,VANDERBILT UNIVERSITY,ENA FIRST PUBLIC:2023 07 14T00:23:41Z|ENA LAST UPDATE:2023 07 14T00:23:41Z|External Id:SAMEA113400385|INSDC center alias:VANDERBILT UNIVERSITY|INSDC center name:VANDERBILT UNIVERSITY|INSDC first public:2023 07 14T00:23:41Z|INSDC last update:2023 07 14T00:23:41Z|INSDC status:public|Submitter Id:E MTAB 12901:Sample 2|age:30|broker name:ArrayExpress|common name:zebrafish|developmental stage:adult|disease:normal|genotype:wild type genotype|organism part:brain|sample name:E MTAB 12901:Sample 2|scientific name:Danio rerio|sex:female|strain:AB,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing; RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,E MTAB 12901:Sample 2 p,Sample 2 p,RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,brain tissue were dissected from zebrafish and snap frozen until RNA isolation Trizol + zymo RNA clean column kit TruSeq RNA sample prep kit Illumina to prepare cDNA libraries post PolyA selection,Experimental Factor: genotype:wild type genotype,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,ERP146895,Illumina NovaSeq 6000 paired end sequencing; RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,ENA FIRST PUBLIC:2023 07 14|ENA LAST UPDATE:2023 07 14,8680-JP-0002_S1_L005_R1_001.fastq.gz 8680-JP-0002_S1_L005_R2_001.fastq.gz,fastq fastq,15153807038.0,50178169.0,E MTAB 12901:8680 JP 0002 S1 L005 R,0:151 1:151,A:4156183785;C:3309476575;G:3635942314;T:4030261947;N:21942417,151,151,,,4156183785,3309476575,3635942314,4030261947,21942417,ERX10689986,ERS15395531,ERA23235100,VANDERBILT UNIVERSITY|European Nucleotide Archive,VANDERBILT UNIVERSITY|European Nucleotide Archive,2,0.92069,0.91964,0.13733,0.13466,0.70102,0.70185,0.48507,0.48992,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,United States,2023-07-14,Adult,Adult,Brain,Nervous System
11716,ERR11282342,ERX10689985,ERS15395530,ERP146895,PRJEB61813,RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,E-MTAB-12901,Other,The ATP binding cassette subfamily B member 1 ABCB1  encoding a multidrug transporter P glycoprotein  plays a critical role in the efflux of xenobiotics in humans and is implicated in cancer resistance to chemotherapy—however  little information regarding Pgp at the zebrafish. In addition  to study the function of Pgp in the zebrafish brain in the aging process  we performed RNA seq using brain tissue of WT and abcb4 knockout zebrafish at different ages  such as 2 month and 30 month.,ENA FIRST PUBLIC:2023 07 14|ENA LAST UPDATE:2023 07 14,,Protocols: brain tissue were dissected from zebrafish and snap frozen until RNA isolation Trizol + zymo RNA clean column kit TruSeq RNA sample prep kit Illumina to prepare cDNA libraries post PolyA selection,Sample 1,SAMEA113400384,VANDERBILT UNIVERSITY,ENA FIRST PUBLIC:2023 07 14T00:23:41Z|ENA LAST UPDATE:2023 07 14T00:23:41Z|External Id:SAMEA113400384|INSDC center alias:VANDERBILT UNIVERSITY|INSDC center name:VANDERBILT UNIVERSITY|INSDC first public:2023 07 14T00:23:41Z|INSDC last update:2023 07 14T00:23:41Z|INSDC status:public|Submitter Id:E MTAB 12901:Sample 1|age:30|broker name:ArrayExpress|common name:zebrafish|developmental stage:adult|disease:normal|genotype:wild type genotype|organism part:brain|sample name:E MTAB 12901:Sample 1|scientific name:Danio rerio|sex:female|strain:AB,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing; RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,E MTAB 12901:Sample 1 p,Sample 1 p,RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,brain tissue were dissected from zebrafish and snap frozen until RNA isolation Trizol + zymo RNA clean column kit TruSeq RNA sample prep kit Illumina to prepare cDNA libraries post PolyA selection,Experimental Factor: genotype:wild type genotype,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,ERP146895,Illumina NovaSeq 6000 paired end sequencing; RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,ENA FIRST PUBLIC:2023 07 14|ENA LAST UPDATE:2023 07 14,8680-JP-0001_S1_L005_R2_001.fastq.gz 8680-JP-0001_S1_L005_R1_001.fastq.gz,fastq fastq,17758550696.0,58803148.0,E MTAB 12901:8680 JP 0001 S1 L005 R,0:151 1:151,A:4866917250;C:3906782394;G:4241519777;T:4717566830;N:25764445,151,151,,,4866917250,3906782394,4241519777,4717566830,25764445,ERX10689985,ERS15395530,ERA23235100,VANDERBILT UNIVERSITY|European Nucleotide Archive,VANDERBILT UNIVERSITY|European Nucleotide Archive,2,0.92263,0.92154,0.13341,0.12969,0.69443,0.69658,0.48648,0.49678,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,United States,2023-07-14,Adult,Adult,Brain,Nervous System
11717,ERR11282341,ERX10689984,ERS15395529,ERP146895,PRJEB61813,RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,E-MTAB-12901,Other,The ATP binding cassette subfamily B member 1 ABCB1  encoding a multidrug transporter P glycoprotein  plays a critical role in the efflux of xenobiotics in humans and is implicated in cancer resistance to chemotherapy—however  little information regarding Pgp at the zebrafish. In addition  to study the function of Pgp in the zebrafish brain in the aging process  we performed RNA seq using brain tissue of WT and abcb4 knockout zebrafish at different ages  such as 2 month and 30 month.,ENA FIRST PUBLIC:2023 07 14|ENA LAST UPDATE:2023 07 14,,Protocols: brain tissue were dissected from zebrafish and snap frozen until RNA isolation Trizol + zymo RNA clean column kit TruSeq RNA sample prep kit Illumina to prepare cDNA libraries post PolyA selection,Sample 9,SAMEA113400383,VANDERBILT UNIVERSITY,ENA FIRST PUBLIC:2023 07 14T00:23:41Z|ENA LAST UPDATE:2023 07 14T00:23:41Z|External Id:SAMEA113400383|INSDC center alias:VANDERBILT UNIVERSITY|INSDC center name:VANDERBILT UNIVERSITY|INSDC first public:2023 07 14T00:23:41Z|INSDC last update:2023 07 14T00:23:41Z|INSDC status:public|Submitter Id:E MTAB 12901:Sample 9|age:2|broker name:ArrayExpress|common name:zebrafish|developmental stage:adult|disease:normal|genotype:abcb4  / |organism part:brain|sample name:E MTAB 12901:Sample 9|scientific name:Danio rerio|sex:female|strain:AB,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing; RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,E MTAB 12901:Sample 9 p,Sample 9 p,RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,brain tissue were dissected from zebrafish and snap frozen until RNA isolation Trizol + zymo RNA clean column kit TruSeq RNA sample prep kit Illumina to prepare cDNA libraries post PolyA selection,Experimental Factor: genotype:abcb4  / ,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,ERP146895,Illumina NovaSeq 6000 paired end sequencing; RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,ENA FIRST PUBLIC:2023 07 14|ENA LAST UPDATE:2023 07 14,8680-JP-0009_S1_L005_R2_001.fastq.gz 8680-JP-0009_S1_L005_R1_001.fastq.gz,fastq fastq,21619735456.0,71588528.0,E MTAB 12901:8680 JP 0009 S1 L005 R,0:151 1:151,A:5904040180;C:4720941204;G:5229712921;T:5733559571;N:31481580,151,151,,,5904040180,4720941204,5229712921,5733559571,31481580,ERX10689984,ERS15395529,ERA23235100,VANDERBILT UNIVERSITY|European Nucleotide Archive,VANDERBILT UNIVERSITY|European Nucleotide Archive,2,0.92235,0.92126,0.13956,0.13682,0.70378,0.70526,0.4929,0.49286,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,United States,2023-07-14,Adult,Adult,Brain,Nervous System
11718,ERR11282340,ERX10689983,ERS15395528,ERP146895,PRJEB61813,RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,E-MTAB-12901,Other,The ATP binding cassette subfamily B member 1 ABCB1  encoding a multidrug transporter P glycoprotein  plays a critical role in the efflux of xenobiotics in humans and is implicated in cancer resistance to chemotherapy—however  little information regarding Pgp at the zebrafish. In addition  to study the function of Pgp in the zebrafish brain in the aging process  we performed RNA seq using brain tissue of WT and abcb4 knockout zebrafish at different ages  such as 2 month and 30 month.,ENA FIRST PUBLIC:2023 07 14|ENA LAST UPDATE:2023 07 14,,Protocols: brain tissue were dissected from zebrafish and snap frozen until RNA isolation Trizol + zymo RNA clean column kit TruSeq RNA sample prep kit Illumina to prepare cDNA libraries post PolyA selection,Sample 11,SAMEA113400382,VANDERBILT UNIVERSITY,ENA FIRST PUBLIC:2023 07 14T00:23:41Z|ENA LAST UPDATE:2023 07 14T00:23:41Z|External Id:SAMEA113400382|INSDC center alias:VANDERBILT UNIVERSITY|INSDC center name:VANDERBILT UNIVERSITY|INSDC first public:2023 07 14T00:23:41Z|INSDC last update:2023 07 14T00:23:41Z|INSDC status:public|Submitter Id:E MTAB 12901:Sample 11|age:2|broker name:ArrayExpress|common name:zebrafish|developmental stage:adult|disease:normal|genotype:abcb4  / |organism part:brain|sample name:E MTAB 12901:Sample 11|scientific name:Danio rerio|sex:female|strain:AB,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing; RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,E MTAB 12901:Sample 11 p,Sample 11 p,RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,brain tissue were dissected from zebrafish and snap frozen until RNA isolation Trizol + zymo RNA clean column kit TruSeq RNA sample prep kit Illumina to prepare cDNA libraries post PolyA selection,Experimental Factor: genotype:abcb4  / ,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,ERP146895,Illumina NovaSeq 6000 paired end sequencing; RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,ENA FIRST PUBLIC:2023 07 14|ENA LAST UPDATE:2023 07 14,8680-JP-0011_S1_L005_R1_001.fastq.gz 8680-JP-0011_S1_L005_R2_001.fastq.gz,fastq fastq,20372991574.0,67460237.0,E MTAB 12901:8680 JP 0011 S1 L005 R,0:151 1:151,A:5569250549;C:4448986210;G:4925237941;T:5399892024;N:29624850,151,151,,,5569250549,4448986210,4925237941,5399892024,29624850,ERX10689983,ERS15395528,ERA23235100,VANDERBILT UNIVERSITY|European Nucleotide Archive,VANDERBILT UNIVERSITY|European Nucleotide Archive,2,0.92578,0.92449,0.12979,0.12632,0.69666,0.69775,0.51379,0.51557,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,United States,2023-07-14,Adult,Adult,Brain,Nervous System
11719,ERR11282339,ERX10689982,ERS15395527,ERP146895,PRJEB61813,RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,E-MTAB-12901,Other,The ATP binding cassette subfamily B member 1 ABCB1  encoding a multidrug transporter P glycoprotein  plays a critical role in the efflux of xenobiotics in humans and is implicated in cancer resistance to chemotherapy—however  little information regarding Pgp at the zebrafish. In addition  to study the function of Pgp in the zebrafish brain in the aging process  we performed RNA seq using brain tissue of WT and abcb4 knockout zebrafish at different ages  such as 2 month and 30 month.,ENA FIRST PUBLIC:2023 07 14|ENA LAST UPDATE:2023 07 14,,Protocols: brain tissue were dissected from zebrafish and snap frozen until RNA isolation Trizol + zymo RNA clean column kit TruSeq RNA sample prep kit Illumina to prepare cDNA libraries post PolyA selection,Sample 10,SAMEA113400381,VANDERBILT UNIVERSITY,ENA FIRST PUBLIC:2023 07 14T00:23:41Z|ENA LAST UPDATE:2023 07 14T00:23:41Z|External Id:SAMEA113400381|INSDC center alias:VANDERBILT UNIVERSITY|INSDC center name:VANDERBILT UNIVERSITY|INSDC first public:2023 07 14T00:23:41Z|INSDC last update:2023 07 14T00:23:41Z|INSDC status:public|Submitter Id:E MTAB 12901:Sample 10|age:2|broker name:ArrayExpress|common name:zebrafish|developmental stage:adult|disease:normal|genotype:abcb4  / |organism part:brain|sample name:E MTAB 12901:Sample 10|scientific name:Danio rerio|sex:female|strain:AB,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing; RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,E MTAB 12901:Sample 10 p,Sample 10 p,RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,brain tissue were dissected from zebrafish and snap frozen until RNA isolation Trizol + zymo RNA clean column kit TruSeq RNA sample prep kit Illumina to prepare cDNA libraries post PolyA selection,Experimental Factor: genotype:abcb4  / ,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,ERP146895,Illumina NovaSeq 6000 paired end sequencing; RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,ENA FIRST PUBLIC:2023 07 14|ENA LAST UPDATE:2023 07 14,8680-JP-0010_S1_L005_R1_001.fastq.gz 8680-JP-0010_S1_L005_R2_001.fastq.gz,fastq fastq,21517298566.0,71249333.0,E MTAB 12901:8680 JP 0010 S1 L005 R,0:151 1:151,A:5890133399;C:4693794003;G:5193013881;T:5709021540;N:31335743,151,151,,,5890133399,4693794003,5193013881,5709021540,31335743,ERX10689982,ERS15395527,ERA23235100,VANDERBILT UNIVERSITY|European Nucleotide Archive,VANDERBILT UNIVERSITY|European Nucleotide Archive,2,0.92431,0.92248,0.13476,0.13116,0.70203,0.70283,0.50087,0.50123,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,United States,2023-07-14,Adult,Adult,Brain,Nervous System
11720,ERR11282338,ERX10689981,ERS15395526,ERP146895,PRJEB61813,RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,E-MTAB-12901,Other,The ATP binding cassette subfamily B member 1 ABCB1  encoding a multidrug transporter P glycoprotein  plays a critical role in the efflux of xenobiotics in humans and is implicated in cancer resistance to chemotherapy—however  little information regarding Pgp at the zebrafish. In addition  to study the function of Pgp in the zebrafish brain in the aging process  we performed RNA seq using brain tissue of WT and abcb4 knockout zebrafish at different ages  such as 2 month and 30 month.,ENA FIRST PUBLIC:2023 07 14|ENA LAST UPDATE:2023 07 14,,Protocols: brain tissue were dissected from zebrafish and snap frozen until RNA isolation Trizol + zymo RNA clean column kit TruSeq RNA sample prep kit Illumina to prepare cDNA libraries post PolyA selection,Sample 5,SAMEA113400380,VANDERBILT UNIVERSITY,ENA FIRST PUBLIC:2023 07 14T00:23:41Z|ENA LAST UPDATE:2023 07 14T00:23:41Z|External Id:SAMEA113400380|INSDC center alias:VANDERBILT UNIVERSITY|INSDC center name:VANDERBILT UNIVERSITY|INSDC first public:2023 07 14T00:23:41Z|INSDC last update:2023 07 14T00:23:41Z|INSDC status:public|Submitter Id:E MTAB 12901:Sample 5|age:30|broker name:ArrayExpress|common name:zebrafish|developmental stage:adult|disease:normal|genotype:abcb4  / |organism part:brain|sample name:E MTAB 12901:Sample 5|scientific name:Danio rerio|sex:female|strain:AB,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing; RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,E MTAB 12901:Sample 5 p,Sample 5 p,RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,brain tissue were dissected from zebrafish and snap frozen until RNA isolation Trizol + zymo RNA clean column kit TruSeq RNA sample prep kit Illumina to prepare cDNA libraries post PolyA selection,Experimental Factor: genotype:abcb4  / ,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,ERP146895,Illumina NovaSeq 6000 paired end sequencing; RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,ENA FIRST PUBLIC:2023 07 14|ENA LAST UPDATE:2023 07 14,8680-JP-0005_S1_L005_R1_001.fastq.gz 8680-JP-0005_S1_L005_R2_001.fastq.gz,fastq fastq,25670665306.0,85002203.0,E MTAB 12901:8680 JP 0005 S1 L005 R,0:151 1:151,A:7004508034;C:5563021332;G:6252648683;T:6813680645;N:36806612,151,151,,,7004508034,5563021332,6252648683,6813680645,36806612,ERX10689981,ERS15395526,ERA23235100,VANDERBILT UNIVERSITY|European Nucleotide Archive,VANDERBILT UNIVERSITY|European Nucleotide Archive,2,0.92268,0.92095,0.13119,0.12796,0.70234,0.70276,0.51658,0.51519,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,United States,2023-07-14,Adult,Adult,Brain,Nervous System
11721,ERR11282337,ERX10689980,ERS15395525,ERP146895,PRJEB61813,RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,E-MTAB-12901,Other,The ATP binding cassette subfamily B member 1 ABCB1  encoding a multidrug transporter P glycoprotein  plays a critical role in the efflux of xenobiotics in humans and is implicated in cancer resistance to chemotherapy—however  little information regarding Pgp at the zebrafish. In addition  to study the function of Pgp in the zebrafish brain in the aging process  we performed RNA seq using brain tissue of WT and abcb4 knockout zebrafish at different ages  such as 2 month and 30 month.,ENA FIRST PUBLIC:2023 07 14|ENA LAST UPDATE:2023 07 14,,Protocols: brain tissue were dissected from zebrafish and snap frozen until RNA isolation Trizol + zymo RNA clean column kit TruSeq RNA sample prep kit Illumina to prepare cDNA libraries post PolyA selection,Sample 4,SAMEA113400379,VANDERBILT UNIVERSITY,ENA FIRST PUBLIC:2023 07 14T00:23:41Z|ENA LAST UPDATE:2023 07 14T00:23:41Z|External Id:SAMEA113400379|INSDC center alias:VANDERBILT UNIVERSITY|INSDC center name:VANDERBILT UNIVERSITY|INSDC first public:2023 07 14T00:23:41Z|INSDC last update:2023 07 14T00:23:41Z|INSDC status:public|Submitter Id:E MTAB 12901:Sample 4|age:30|broker name:ArrayExpress|common name:zebrafish|developmental stage:adult|disease:normal|genotype:abcb4  / |organism part:brain|sample name:E MTAB 12901:Sample 4|scientific name:Danio rerio|sex:female|strain:AB,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing; RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,E MTAB 12901:Sample 4 p,Sample 4 p,RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,brain tissue were dissected from zebrafish and snap frozen until RNA isolation Trizol + zymo RNA clean column kit TruSeq RNA sample prep kit Illumina to prepare cDNA libraries post PolyA selection,Experimental Factor: genotype:abcb4  / ,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,ERP146895,Illumina NovaSeq 6000 paired end sequencing; RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,ENA FIRST PUBLIC:2023 07 14|ENA LAST UPDATE:2023 07 14,8680-JP-0004_S1_L005_R1_001.fastq.gz 8680-JP-0004_S1_L005_R2_001.fastq.gz,fastq fastq,19678467074.0,65160487.0,E MTAB 12901:8680 JP 0004 S1 L005 R,0:151 1:151,A:5388172969;C:4290008191;G:4741082570;T:5230699181;N:28504163,151,151,,,5388172969,4290008191,4741082570,5230699181,28504163,ERX10689980,ERS15395525,ERA23235100,VANDERBILT UNIVERSITY|European Nucleotide Archive,VANDERBILT UNIVERSITY|European Nucleotide Archive,2,0.92019,0.91807,0.13779,0.13325,0.69739,0.69682,0.48956,0.48353,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,United States,2023-07-14,Adult,Adult,Brain,Nervous System
11722,ERR11282336,ERX10689979,ERS15395524,ERP146895,PRJEB61813,RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,E-MTAB-12901,Other,The ATP binding cassette subfamily B member 1 ABCB1  encoding a multidrug transporter P glycoprotein  plays a critical role in the efflux of xenobiotics in humans and is implicated in cancer resistance to chemotherapy—however  little information regarding Pgp at the zebrafish. In addition  to study the function of Pgp in the zebrafish brain in the aging process  we performed RNA seq using brain tissue of WT and abcb4 knockout zebrafish at different ages  such as 2 month and 30 month.,ENA FIRST PUBLIC:2023 07 14|ENA LAST UPDATE:2023 07 14,,Protocols: brain tissue were dissected from zebrafish and snap frozen until RNA isolation Trizol + zymo RNA clean column kit TruSeq RNA sample prep kit Illumina to prepare cDNA libraries post PolyA selection,Sample 12,SAMEA113400378,VANDERBILT UNIVERSITY,ENA FIRST PUBLIC:2023 07 14T00:23:41Z|ENA LAST UPDATE:2023 07 14T00:23:41Z|External Id:SAMEA113400378|INSDC center alias:VANDERBILT UNIVERSITY|INSDC center name:VANDERBILT UNIVERSITY|INSDC first public:2023 07 14T00:23:41Z|INSDC last update:2023 07 14T00:23:41Z|INSDC status:public|Submitter Id:E MTAB 12901:Sample 12|age:30|broker name:ArrayExpress|common name:zebrafish|developmental stage:adult|disease:normal|genotype:abcb4  / |organism part:brain|sample name:E MTAB 12901:Sample 12|scientific name:Danio rerio|sex:female|strain:AB,,,,,,,,,Illumina NovaSeq 6000 paired end sequencing; RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,E MTAB 12901:Sample 12 p,Sample 12 p,RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,brain tissue were dissected from zebrafish and snap frozen until RNA isolation Trizol + zymo RNA clean column kit TruSeq RNA sample prep kit Illumina to prepare cDNA libraries post PolyA selection,Experimental Factor: genotype:abcb4  / ,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,ERP146895,Illumina NovaSeq 6000 paired end sequencing; RNA seq of brain tissues of WT and abcb4 knockout zebrafish at 2 month and 30 month,ENA FIRST PUBLIC:2023 07 14|ENA LAST UPDATE:2023 07 14,8680-JP-0012_S1_L005_R1_001.fastq.gz 8680-JP-0012_S1_L005_R2_001.fastq.gz,fastq fastq,19025354324.0,62997862.0,E MTAB 12901:8680 JP 0012 S1 L005 R,0:151 1:151,A:5203524540;C:4195830684;G:4551047863;T:5047420365;N:27530872,151,151,,,5203524540,4195830684,4551047863,5047420365,27530872,ERX10689979,ERS15395524,ERA23235100,VANDERBILT UNIVERSITY|European Nucleotide Archive,VANDERBILT UNIVERSITY|European Nucleotide Archive,2,0.92091,0.92095,0.13145,0.12737,0.69238,0.69258,0.50372,0.48431,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,trueseq,bulk,unknown,unknown,,United States,2023-07-14,Adult,Adult,Brain,Nervous System
31902,SRR28763293,SRX24328715,SRS21090019,SRP503258,PRJNA1102381,Acidification alters anxiety like behaviour and brain gene expression in zebrafish,PRJNA1102381,Other,CO2 driven acidification of freshwater ecosystems is an accelerating process that can impact aquatic life in the future. Despite their importance in accurately predicting how future freshwater teleost fish will respond to changing environments  molecular mechanisms coordinating the response to elevated CO2 have not been extensively studied. Making use of the zebrafish Danio rerio considered 'tolerant' to acidified waters  we analyzed the behavioural and transcriptomic response to acidification to highlight potential response mechanisms in the brain and the gills which mediate behaviour and perform acid base regulation. Adult zebrafish were exposed to control 500 uatm and elevated CO2 1000 uatm for five days and submitted to Open Field and Novel Object Approach tests  revealing a decrease in anxiety like behaviour in response to elevated CO2. In the brain  acidification caused differential expression of genes involved in cytoskeletal organization  cellular transport  immunity and the visual neural system. In the gills  an elevated expression of genes involved in immune response and oxidoreduction with increasing pCO2 in combination with decreased anxiety like behaviour point to an increase of oxidative stress. However  the absence of differentially expressed genes in gills indicates that this species has adapted to regulating its acid base balance in acidified waters  common in its natural habitat. Our study pinpoints the molecular response to elevated CO2 possibly triggering behavioural changes in zebrafish and suggest that not only marine  but also freshwater fishes will be behaviourally affected by acidification due to rapid climate change.,,,,,EB19,,replicate name:10|breed:AB|age:4 months|dev stage:adult|collection date:2021 11 14|geo loc name:Hong Kong|sex:not determined|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of 4mpf Danio rerio brain,EB19,EB19,Total RNA was extracted using the RNeasy Micro Kit Qiagen.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP503258,,,EB19_1.fastq.gz EB19_2.fastq.gz,fastq fastq,9436386526.0,31246313.0,EB19 1.fastq.gz,0:151 1:151,A:2716315062;C:1976294752;G:2147671436;T:2595980360;N:124916,151,151,,,2716315062,1976294752,2147671436,2595980360,124916,SRX24328715,SRS21090019,SRA1849282,The University of Hong Kong|School of Biological Sciences,The University of Hong Kong,2,0.91409,0.91345,0.24896,0.24788,0.78056,0.78279,0.72332,0.73168,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2024-04-22,Adult,Adult,Brain,Nervous System
31903,SRR28763294,SRX24328714,SRS21090018,SRP503258,PRJNA1102381,Acidification alters anxiety like behaviour and brain gene expression in zebrafish,PRJNA1102381,Other,CO2 driven acidification of freshwater ecosystems is an accelerating process that can impact aquatic life in the future. Despite their importance in accurately predicting how future freshwater teleost fish will respond to changing environments  molecular mechanisms coordinating the response to elevated CO2 have not been extensively studied. Making use of the zebrafish Danio rerio considered 'tolerant' to acidified waters  we analyzed the behavioural and transcriptomic response to acidification to highlight potential response mechanisms in the brain and the gills which mediate behaviour and perform acid base regulation. Adult zebrafish were exposed to control 500 uatm and elevated CO2 1000 uatm for five days and submitted to Open Field and Novel Object Approach tests  revealing a decrease in anxiety like behaviour in response to elevated CO2. In the brain  acidification caused differential expression of genes involved in cytoskeletal organization  cellular transport  immunity and the visual neural system. In the gills  an elevated expression of genes involved in immune response and oxidoreduction with increasing pCO2 in combination with decreased anxiety like behaviour point to an increase of oxidative stress. However  the absence of differentially expressed genes in gills indicates that this species has adapted to regulating its acid base balance in acidified waters  common in its natural habitat. Our study pinpoints the molecular response to elevated CO2 possibly triggering behavioural changes in zebrafish and suggest that not only marine  but also freshwater fishes will be behaviourally affected by acidification due to rapid climate change.,,,,,EB18,,replicate name:9|breed:AB|age:4 months|dev stage:adult|collection date:2021 11 08|geo loc name:Hong Kong|sex:not determined|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of 4mpf Danio rerio brain,EB18,EB18,Total RNA was extracted using the RNeasy Micro Kit Qiagen.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP503258,,,EB18_1.fastq.gz EB18_2.fastq.gz,fastq fastq,9118420390.0,30193445.0,EB18 1.fastq.gz,0:151 1:151,A:2629035452;C:1916588061;G:2003273132;T:2569401842;N:121903,151,151,,,2629035452,1916588061,2003273132,2569401842,121903,SRX24328714,SRS21090018,SRA1849282,The University of Hong Kong|School of Biological Sciences,The University of Hong Kong,2,0.92136,0.91989,0.22403,0.22513,0.72318,0.72344,0.58479,0.59137,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2024-04-22,Adult,Adult,Brain,Nervous System
31904,SRR28763295,SRX24328713,SRS21090017,SRP503258,PRJNA1102381,Acidification alters anxiety like behaviour and brain gene expression in zebrafish,PRJNA1102381,Other,CO2 driven acidification of freshwater ecosystems is an accelerating process that can impact aquatic life in the future. Despite their importance in accurately predicting how future freshwater teleost fish will respond to changing environments  molecular mechanisms coordinating the response to elevated CO2 have not been extensively studied. Making use of the zebrafish Danio rerio considered 'tolerant' to acidified waters  we analyzed the behavioural and transcriptomic response to acidification to highlight potential response mechanisms in the brain and the gills which mediate behaviour and perform acid base regulation. Adult zebrafish were exposed to control 500 uatm and elevated CO2 1000 uatm for five days and submitted to Open Field and Novel Object Approach tests  revealing a decrease in anxiety like behaviour in response to elevated CO2. In the brain  acidification caused differential expression of genes involved in cytoskeletal organization  cellular transport  immunity and the visual neural system. In the gills  an elevated expression of genes involved in immune response and oxidoreduction with increasing pCO2 in combination with decreased anxiety like behaviour point to an increase of oxidative stress. However  the absence of differentially expressed genes in gills indicates that this species has adapted to regulating its acid base balance in acidified waters  common in its natural habitat. Our study pinpoints the molecular response to elevated CO2 possibly triggering behavioural changes in zebrafish and suggest that not only marine  but also freshwater fishes will be behaviourally affected by acidification due to rapid climate change.,,,,,EB13,,replicate name:8|breed:AB|age:4 months|dev stage:adult|collection date:2021 11 08|geo loc name:Hong Kong|sex:not determined|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of 4mpf Danio rerio brain,EB13,EB13,Total RNA was extracted using the RNeasy Micro Kit Qiagen.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP503258,,,EB13_1.fastq.gz EB13_2.fastq.gz,fastq fastq,9079809388.0,30065594.0,EB13 1.fastq.gz,0:151 1:151,A:2664300477;C:1849456779;G:1954969464;T:2610962453;N:120215,151,151,,,2664300477,1849456779,1954969464,2610962453,120215,SRX24328713,SRS21090017,SRA1849282,The University of Hong Kong|School of Biological Sciences,The University of Hong Kong,2,0.92157,0.92274,0.20709,0.20463,0.77609,0.77962,0.77474,0.76073,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2024-04-22,Adult,Adult,Brain,Nervous System
31905,SRR28763296,SRX24328712,SRS21090016,SRP503258,PRJNA1102381,Acidification alters anxiety like behaviour and brain gene expression in zebrafish,PRJNA1102381,Other,CO2 driven acidification of freshwater ecosystems is an accelerating process that can impact aquatic life in the future. Despite their importance in accurately predicting how future freshwater teleost fish will respond to changing environments  molecular mechanisms coordinating the response to elevated CO2 have not been extensively studied. Making use of the zebrafish Danio rerio considered 'tolerant' to acidified waters  we analyzed the behavioural and transcriptomic response to acidification to highlight potential response mechanisms in the brain and the gills which mediate behaviour and perform acid base regulation. Adult zebrafish were exposed to control 500 uatm and elevated CO2 1000 uatm for five days and submitted to Open Field and Novel Object Approach tests  revealing a decrease in anxiety like behaviour in response to elevated CO2. In the brain  acidification caused differential expression of genes involved in cytoskeletal organization  cellular transport  immunity and the visual neural system. In the gills  an elevated expression of genes involved in immune response and oxidoreduction with increasing pCO2 in combination with decreased anxiety like behaviour point to an increase of oxidative stress. However  the absence of differentially expressed genes in gills indicates that this species has adapted to regulating its acid base balance in acidified waters  common in its natural habitat. Our study pinpoints the molecular response to elevated CO2 possibly triggering behavioural changes in zebrafish and suggest that not only marine  but also freshwater fishes will be behaviourally affected by acidification due to rapid climate change.,,,,,EB11,,replicate name:7|breed:AB|age:4 months|dev stage:adult|collection date:2021 11 08|geo loc name:Hong Kong|sex:not determined|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of 4mpf Danio rerio brain,EB11,EB11,Total RNA was extracted using the RNeasy Micro Kit Qiagen.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP503258,,,EB11_1.fastq.gz EB11_2.fastq.gz,fastq fastq,9504832712.0,31472956.0,EB11 1.fastq.gz,0:151 1:151,A:2795532595;C:1925063954;G:2051665162;T:2732443741;N:127260,151,151,,,2795532595,1925063954,2051665162,2732443741,127260,SRX24328712,SRS21090016,SRA1849282,The University of Hong Kong|School of Biological Sciences,The University of Hong Kong,2,0.93395,0.93446,0.15772,0.15556,0.87117,0.87462,0.89532,0.89681,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2024-04-22,Adult,Adult,Brain,Nervous System
31906,SRR28763297,SRX24328711,SRS21090015,SRP503258,PRJNA1102381,Acidification alters anxiety like behaviour and brain gene expression in zebrafish,PRJNA1102381,Other,CO2 driven acidification of freshwater ecosystems is an accelerating process that can impact aquatic life in the future. Despite their importance in accurately predicting how future freshwater teleost fish will respond to changing environments  molecular mechanisms coordinating the response to elevated CO2 have not been extensively studied. Making use of the zebrafish Danio rerio considered 'tolerant' to acidified waters  we analyzed the behavioural and transcriptomic response to acidification to highlight potential response mechanisms in the brain and the gills which mediate behaviour and perform acid base regulation. Adult zebrafish were exposed to control 500 uatm and elevated CO2 1000 uatm for five days and submitted to Open Field and Novel Object Approach tests  revealing a decrease in anxiety like behaviour in response to elevated CO2. In the brain  acidification caused differential expression of genes involved in cytoskeletal organization  cellular transport  immunity and the visual neural system. In the gills  an elevated expression of genes involved in immune response and oxidoreduction with increasing pCO2 in combination with decreased anxiety like behaviour point to an increase of oxidative stress. However  the absence of differentially expressed genes in gills indicates that this species has adapted to regulating its acid base balance in acidified waters  common in its natural habitat. Our study pinpoints the molecular response to elevated CO2 possibly triggering behavioural changes in zebrafish and suggest that not only marine  but also freshwater fishes will be behaviourally affected by acidification due to rapid climate change.,,,,,EB10,,replicate name:6|breed:AB|age:4 months|dev stage:adult|collection date:2021 11 08|geo loc name:Hong Kong|sex:not determined|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of 4mpf Danio rerio brain,EB10,EB10,Total RNA was extracted using the RNeasy Micro Kit Qiagen.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP503258,,,EB10_1.fastq.gz EB10_2.fastq.gz,fastq fastq,9789274734.0,32414817.0,EB10 1.fastq.gz,0:151 1:151,A:2824956587;C:2042095073;G:2194234020;T:2727859573;N:129481,151,151,,,2824956587,2042095073,2194234020,2727859573,129481,SRX24328711,SRS21090015,SRA1849282,The University of Hong Kong|School of Biological Sciences,The University of Hong Kong,2,0.92285,0.9232,0.22353,0.22316,0.76658,0.76723,0.70407,0.36056,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2024-04-22,Adult,Adult,Brain,Nervous System
31907,SRR28763298,SRX24328710,SRS21090014,SRP503258,PRJNA1102381,Acidification alters anxiety like behaviour and brain gene expression in zebrafish,PRJNA1102381,Other,CO2 driven acidification of freshwater ecosystems is an accelerating process that can impact aquatic life in the future. Despite their importance in accurately predicting how future freshwater teleost fish will respond to changing environments  molecular mechanisms coordinating the response to elevated CO2 have not been extensively studied. Making use of the zebrafish Danio rerio considered 'tolerant' to acidified waters  we analyzed the behavioural and transcriptomic response to acidification to highlight potential response mechanisms in the brain and the gills which mediate behaviour and perform acid base regulation. Adult zebrafish were exposed to control 500 uatm and elevated CO2 1000 uatm for five days and submitted to Open Field and Novel Object Approach tests  revealing a decrease in anxiety like behaviour in response to elevated CO2. In the brain  acidification caused differential expression of genes involved in cytoskeletal organization  cellular transport  immunity and the visual neural system. In the gills  an elevated expression of genes involved in immune response and oxidoreduction with increasing pCO2 in combination with decreased anxiety like behaviour point to an increase of oxidative stress. However  the absence of differentially expressed genes in gills indicates that this species has adapted to regulating its acid base balance in acidified waters  common in its natural habitat. Our study pinpoints the molecular response to elevated CO2 possibly triggering behavioural changes in zebrafish and suggest that not only marine  but also freshwater fishes will be behaviourally affected by acidification due to rapid climate change.,,,,,EB7,,replicate name:5|breed:AB|age:4 months|dev stage:adult|collection date:2021 11 02|geo loc name:Hong Kong|sex:not determined|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of 4mpf Danio rerio brain,EB7,EB7,Total RNA was extracted using the RNeasy Micro Kit Qiagen.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP503258,,,EB7_1.fastq.gz EB7_2.fastq.gz,fastq fastq,10834721120.0,35876560.0,EB7 1.fastq.gz,0:151 1:151,A:3080234341;C:2317625501;G:2459979119;T:2976734982;N:147177,151,151,,,3080234341,2317625501,2459979119,2976734982,147177,SRX24328710,SRS21090014,SRA1849282,The University of Hong Kong|School of Biological Sciences,The University of Hong Kong,2,0.91597,0.91208,0.20246,0.20371,0.70711,0.70737,0.46676,0.54014,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2024-04-22,Adult,Adult,Brain,Nervous System
31908,SRR28763299,SRX24328709,SRS21090013,SRP503258,PRJNA1102381,Acidification alters anxiety like behaviour and brain gene expression in zebrafish,PRJNA1102381,Other,CO2 driven acidification of freshwater ecosystems is an accelerating process that can impact aquatic life in the future. Despite their importance in accurately predicting how future freshwater teleost fish will respond to changing environments  molecular mechanisms coordinating the response to elevated CO2 have not been extensively studied. Making use of the zebrafish Danio rerio considered 'tolerant' to acidified waters  we analyzed the behavioural and transcriptomic response to acidification to highlight potential response mechanisms in the brain and the gills which mediate behaviour and perform acid base regulation. Adult zebrafish were exposed to control 500 uatm and elevated CO2 1000 uatm for five days and submitted to Open Field and Novel Object Approach tests  revealing a decrease in anxiety like behaviour in response to elevated CO2. In the brain  acidification caused differential expression of genes involved in cytoskeletal organization  cellular transport  immunity and the visual neural system. In the gills  an elevated expression of genes involved in immune response and oxidoreduction with increasing pCO2 in combination with decreased anxiety like behaviour point to an increase of oxidative stress. However  the absence of differentially expressed genes in gills indicates that this species has adapted to regulating its acid base balance in acidified waters  common in its natural habitat. Our study pinpoints the molecular response to elevated CO2 possibly triggering behavioural changes in zebrafish and suggest that not only marine  but also freshwater fishes will be behaviourally affected by acidification due to rapid climate change.,,,,,EB6,,replicate name:4|breed:AB|age:4 months|dev stage:adult|collection date:2021 11 02|geo loc name:Hong Kong|sex:not determined|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of 4mpf Danio rerio brain,EB6,EB6,Total RNA was extracted using the RNeasy Micro Kit Qiagen.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP503258,,,EB6_1.fastq.gz EB6_2.fastq.gz,fastq fastq,9741721512.0,32257356.0,EB6 1.fastq.gz,0:151 1:151,A:2786663368;C:2058810098;G:2182236675;T:2713885545;N:125826,151,151,,,2786663368,2058810098,2182236675,2713885545,125826,SRX24328709,SRS21090013,SRA1849282,The University of Hong Kong|School of Biological Sciences,The University of Hong Kong,2,0.9221,0.91676,0.20096,0.20109,0.71885,0.72109,0.5729,0.56637,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2024-04-22,Adult,Adult,Brain,Nervous System
31915,SRR28763306,SRX24328702,SRS21090006,SRP503258,PRJNA1102381,Acidification alters anxiety like behaviour and brain gene expression in zebrafish,PRJNA1102381,Other,CO2 driven acidification of freshwater ecosystems is an accelerating process that can impact aquatic life in the future. Despite their importance in accurately predicting how future freshwater teleost fish will respond to changing environments  molecular mechanisms coordinating the response to elevated CO2 have not been extensively studied. Making use of the zebrafish Danio rerio considered 'tolerant' to acidified waters  we analyzed the behavioural and transcriptomic response to acidification to highlight potential response mechanisms in the brain and the gills which mediate behaviour and perform acid base regulation. Adult zebrafish were exposed to control 500 uatm and elevated CO2 1000 uatm for five days and submitted to Open Field and Novel Object Approach tests  revealing a decrease in anxiety like behaviour in response to elevated CO2. In the brain  acidification caused differential expression of genes involved in cytoskeletal organization  cellular transport  immunity and the visual neural system. In the gills  an elevated expression of genes involved in immune response and oxidoreduction with increasing pCO2 in combination with decreased anxiety like behaviour point to an increase of oxidative stress. However  the absence of differentially expressed genes in gills indicates that this species has adapted to regulating its acid base balance in acidified waters  common in its natural habitat. Our study pinpoints the molecular response to elevated CO2 possibly triggering behavioural changes in zebrafish and suggest that not only marine  but also freshwater fishes will be behaviourally affected by acidification due to rapid climate change.,,,,,EB5,,replicate name:3|breed:AB|age:4 months|dev stage:adult|collection date:2021 11 02|geo loc name:Hong Kong|sex:not determined|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of 4mpf Danio rerio brain,EB5,EB5,Total RNA was extracted using the RNeasy Micro Kit Qiagen.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP503258,,,EB5_1.fastq.gz EB5_2.fastq.gz,fastq fastq,10009088756.0,33142678.0,EB5 1.fastq.gz,0:151 1:151,A:2928623095;C:2061836360;G:2174039537;T:2844456450;N:133314,151,151,,,2928623095,2061836360,2174039537,2844456450,133314,SRX24328702,SRS21090006,SRA1849282,The University of Hong Kong|School of Biological Sciences,The University of Hong Kong,2,0.9185,0.91663,0.21613,0.21748,0.71829,0.71967,0.56772,0.56625,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2024-04-22,Adult,Adult,Brain,Nervous System
31922,SRR28763313,SRX24328695,SRS21089999,SRP503258,PRJNA1102381,Acidification alters anxiety like behaviour and brain gene expression in zebrafish,PRJNA1102381,Other,CO2 driven acidification of freshwater ecosystems is an accelerating process that can impact aquatic life in the future. Despite their importance in accurately predicting how future freshwater teleost fish will respond to changing environments  molecular mechanisms coordinating the response to elevated CO2 have not been extensively studied. Making use of the zebrafish Danio rerio considered 'tolerant' to acidified waters  we analyzed the behavioural and transcriptomic response to acidification to highlight potential response mechanisms in the brain and the gills which mediate behaviour and perform acid base regulation. Adult zebrafish were exposed to control 500 uatm and elevated CO2 1000 uatm for five days and submitted to Open Field and Novel Object Approach tests  revealing a decrease in anxiety like behaviour in response to elevated CO2. In the brain  acidification caused differential expression of genes involved in cytoskeletal organization  cellular transport  immunity and the visual neural system. In the gills  an elevated expression of genes involved in immune response and oxidoreduction with increasing pCO2 in combination with decreased anxiety like behaviour point to an increase of oxidative stress. However  the absence of differentially expressed genes in gills indicates that this species has adapted to regulating its acid base balance in acidified waters  common in its natural habitat. Our study pinpoints the molecular response to elevated CO2 possibly triggering behavioural changes in zebrafish and suggest that not only marine  but also freshwater fishes will be behaviourally affected by acidification due to rapid climate change.,,,,,EB27,,replicate name:14|breed:AB|age:4 months|dev stage:adult|collection date:2021 11 14|geo loc name:Hong Kong|sex:not determined|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of 4mpf Danio rerio brain,EB27,EB27,Total RNA was extracted using the RNeasy Micro Kit Qiagen.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP503258,,,EB27_1.fastq.gz EB27_2.fastq.gz,fastq fastq,9161773094.0,30336997.0,EB27 1.fastq.gz,0:151 1:151,A:2605950329;C:1969811465;G:2071575244;T:2514313551;N:122505,151,151,,,2605950329,1969811465,2071575244,2514313551,122505,SRX24328695,SRS21089999,SRA1849282,The University of Hong Kong|School of Biological Sciences,The University of Hong Kong,2,0.92523,0.92363,0.21064,0.21169,0.70964,0.70991,0.55438,0.55426,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2024-04-22,Adult,Adult,Brain,Nervous System
31923,SRR28763314,SRX24328694,SRS21089998,SRP503258,PRJNA1102381,Acidification alters anxiety like behaviour and brain gene expression in zebrafish,PRJNA1102381,Other,CO2 driven acidification of freshwater ecosystems is an accelerating process that can impact aquatic life in the future. Despite their importance in accurately predicting how future freshwater teleost fish will respond to changing environments  molecular mechanisms coordinating the response to elevated CO2 have not been extensively studied. Making use of the zebrafish Danio rerio considered 'tolerant' to acidified waters  we analyzed the behavioural and transcriptomic response to acidification to highlight potential response mechanisms in the brain and the gills which mediate behaviour and perform acid base regulation. Adult zebrafish were exposed to control 500 uatm and elevated CO2 1000 uatm for five days and submitted to Open Field and Novel Object Approach tests  revealing a decrease in anxiety like behaviour in response to elevated CO2. In the brain  acidification caused differential expression of genes involved in cytoskeletal organization  cellular transport  immunity and the visual neural system. In the gills  an elevated expression of genes involved in immune response and oxidoreduction with increasing pCO2 in combination with decreased anxiety like behaviour point to an increase of oxidative stress. However  the absence of differentially expressed genes in gills indicates that this species has adapted to regulating its acid base balance in acidified waters  common in its natural habitat. Our study pinpoints the molecular response to elevated CO2 possibly triggering behavioural changes in zebrafish and suggest that not only marine  but also freshwater fishes will be behaviourally affected by acidification due to rapid climate change.,,,,,EB26,,replicate name:13|breed:AB|age:4 months|dev stage:adult|collection date:2021 11 14|geo loc name:Hong Kong|sex:not determined|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of 4mpf Danio rerio brain,EB26,EB26,Total RNA was extracted using the RNeasy Micro Kit Qiagen.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP503258,,,EB26_1.fastq.gz EB26_2.fastq.gz,fastq fastq,9240227560.0,30596780.0,EB26 1.fastq.gz,0:151 1:151,A:2642944689;C:1958167494;G:2078976911;T:2560016979;N:121487,151,151,,,2642944689,1958167494,2078976911,2560016979,121487,SRX24328694,SRS21089998,SRA1849282,The University of Hong Kong|School of Biological Sciences,The University of Hong Kong,2,0.92264,0.92192,0.21746,0.21734,0.73292,0.73383,0.62606,0.61636,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2024-04-22,Adult,Adult,Brain,Nervous System
31924,SRR28763315,SRX24328693,SRS21089997,SRP503258,PRJNA1102381,Acidification alters anxiety like behaviour and brain gene expression in zebrafish,PRJNA1102381,Other,CO2 driven acidification of freshwater ecosystems is an accelerating process that can impact aquatic life in the future. Despite their importance in accurately predicting how future freshwater teleost fish will respond to changing environments  molecular mechanisms coordinating the response to elevated CO2 have not been extensively studied. Making use of the zebrafish Danio rerio considered 'tolerant' to acidified waters  we analyzed the behavioural and transcriptomic response to acidification to highlight potential response mechanisms in the brain and the gills which mediate behaviour and perform acid base regulation. Adult zebrafish were exposed to control 500 uatm and elevated CO2 1000 uatm for five days and submitted to Open Field and Novel Object Approach tests  revealing a decrease in anxiety like behaviour in response to elevated CO2. In the brain  acidification caused differential expression of genes involved in cytoskeletal organization  cellular transport  immunity and the visual neural system. In the gills  an elevated expression of genes involved in immune response and oxidoreduction with increasing pCO2 in combination with decreased anxiety like behaviour point to an increase of oxidative stress. However  the absence of differentially expressed genes in gills indicates that this species has adapted to regulating its acid base balance in acidified waters  common in its natural habitat. Our study pinpoints the molecular response to elevated CO2 possibly triggering behavioural changes in zebrafish and suggest that not only marine  but also freshwater fishes will be behaviourally affected by acidification due to rapid climate change.,,,,,EB25,,replicate name:12|breed:AB|age:4 months|dev stage:adult|collection date:2021 11 14|geo loc name:Hong Kong|sex:not determined|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of 4mpf Danio rerio brain,EB25,EB25,Total RNA was extracted using the RNeasy Micro Kit Qiagen.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP503258,,,EB25_1.fastq.gz EB25_2.fastq.gz,fastq fastq,9625587110.0,31872805.0,EB25 1.fastq.gz,0:151 1:151,A:2795560694;C:1995787311;G:2099611038;T:2734501492;N:126575,151,151,,,2795560694,1995787311,2099611038,2734501492,126575,SRX24328693,SRS21089997,SRA1849282,The University of Hong Kong|School of Biological Sciences,The University of Hong Kong,2,0.92658,0.92669,0.20737,0.20889,0.74637,0.74852,0.665,0.67094,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2024-04-22,Adult,Adult,Brain,Nervous System
31925,SRR28763316,SRX24328692,SRS21089996,SRP503258,PRJNA1102381,Acidification alters anxiety like behaviour and brain gene expression in zebrafish,PRJNA1102381,Other,CO2 driven acidification of freshwater ecosystems is an accelerating process that can impact aquatic life in the future. Despite their importance in accurately predicting how future freshwater teleost fish will respond to changing environments  molecular mechanisms coordinating the response to elevated CO2 have not been extensively studied. Making use of the zebrafish Danio rerio considered 'tolerant' to acidified waters  we analyzed the behavioural and transcriptomic response to acidification to highlight potential response mechanisms in the brain and the gills which mediate behaviour and perform acid base regulation. Adult zebrafish were exposed to control 500 uatm and elevated CO2 1000 uatm for five days and submitted to Open Field and Novel Object Approach tests  revealing a decrease in anxiety like behaviour in response to elevated CO2. In the brain  acidification caused differential expression of genes involved in cytoskeletal organization  cellular transport  immunity and the visual neural system. In the gills  an elevated expression of genes involved in immune response and oxidoreduction with increasing pCO2 in combination with decreased anxiety like behaviour point to an increase of oxidative stress. However  the absence of differentially expressed genes in gills indicates that this species has adapted to regulating its acid base balance in acidified waters  common in its natural habitat. Our study pinpoints the molecular response to elevated CO2 possibly triggering behavioural changes in zebrafish and suggest that not only marine  but also freshwater fishes will be behaviourally affected by acidification due to rapid climate change.,,,,,EB21,,replicate name:11|breed:AB|age:4 months|dev stage:adult|collection date:2021 11 14|geo loc name:Hong Kong|sex:not determined|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of 4mpf Danio rerio brain,EB21,EB21,Total RNA was extracted using the RNeasy Micro Kit Qiagen.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP503258,,,EB21_1.fastq.gz EB21_2.fastq.gz,fastq fastq,9252105220.0,30636110.0,EB21 1.fastq.gz,0:151 1:151,A:2713520368;C:1892341723;G:1978899105;T:2667222416;N:121608,151,151,,,2713520368,1892341723,1978899105,2667222416,121608,SRX24328692,SRS21089996,SRA1849282,The University of Hong Kong|School of Biological Sciences,The University of Hong Kong,2,0.92204,0.92307,0.20614,0.20487,0.77561,0.77956,0.75506,0.73666,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2024-04-22,Adult,Adult,Brain,Nervous System
31926,SRR28763317,SRX24328691,SRS21089995,SRP503258,PRJNA1102381,Acidification alters anxiety like behaviour and brain gene expression in zebrafish,PRJNA1102381,Other,CO2 driven acidification of freshwater ecosystems is an accelerating process that can impact aquatic life in the future. Despite their importance in accurately predicting how future freshwater teleost fish will respond to changing environments  molecular mechanisms coordinating the response to elevated CO2 have not been extensively studied. Making use of the zebrafish Danio rerio considered 'tolerant' to acidified waters  we analyzed the behavioural and transcriptomic response to acidification to highlight potential response mechanisms in the brain and the gills which mediate behaviour and perform acid base regulation. Adult zebrafish were exposed to control 500 uatm and elevated CO2 1000 uatm for five days and submitted to Open Field and Novel Object Approach tests  revealing a decrease in anxiety like behaviour in response to elevated CO2. In the brain  acidification caused differential expression of genes involved in cytoskeletal organization  cellular transport  immunity and the visual neural system. In the gills  an elevated expression of genes involved in immune response and oxidoreduction with increasing pCO2 in combination with decreased anxiety like behaviour point to an increase of oxidative stress. However  the absence of differentially expressed genes in gills indicates that this species has adapted to regulating its acid base balance in acidified waters  common in its natural habitat. Our study pinpoints the molecular response to elevated CO2 possibly triggering behavioural changes in zebrafish and suggest that not only marine  but also freshwater fishes will be behaviourally affected by acidification due to rapid climate change.,,,,,EB4,,replicate name:2|breed:AB|age:4 months|dev stage:adult|collection date:2021 11 02|geo loc name:Hong Kong|sex:not determined|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of 4mpf Danio rerio brain,EB4,EB4,Total RNA was extracted using the RNeasy Micro Kit Qiagen.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP503258,,,EB4_1.fastq.gz EB4_2.fastq.gz,fastq fastq,10173670300.0,33687650.0,EB4 1.fastq.gz,0:151 1:151,A:2946513536;C:2116612054;G:2242572059;T:2867836703;N:135948,151,151,,,2946513536,2116612054,2242572059,2867836703,135948,SRX24328691,SRS21089995,SRA1849282,The University of Hong Kong|School of Biological Sciences,The University of Hong Kong,2,0.92771,0.92647,0.2039,0.20424,0.74485,0.74679,0.67237,0.67051,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2024-04-22,Adult,Adult,Brain,Nervous System
31927,SRR28763318,SRX24328690,SRS21089994,SRP503258,PRJNA1102381,Acidification alters anxiety like behaviour and brain gene expression in zebrafish,PRJNA1102381,Other,CO2 driven acidification of freshwater ecosystems is an accelerating process that can impact aquatic life in the future. Despite their importance in accurately predicting how future freshwater teleost fish will respond to changing environments  molecular mechanisms coordinating the response to elevated CO2 have not been extensively studied. Making use of the zebrafish Danio rerio considered 'tolerant' to acidified waters  we analyzed the behavioural and transcriptomic response to acidification to highlight potential response mechanisms in the brain and the gills which mediate behaviour and perform acid base regulation. Adult zebrafish were exposed to control 500 uatm and elevated CO2 1000 uatm for five days and submitted to Open Field and Novel Object Approach tests  revealing a decrease in anxiety like behaviour in response to elevated CO2. In the brain  acidification caused differential expression of genes involved in cytoskeletal organization  cellular transport  immunity and the visual neural system. In the gills  an elevated expression of genes involved in immune response and oxidoreduction with increasing pCO2 in combination with decreased anxiety like behaviour point to an increase of oxidative stress. However  the absence of differentially expressed genes in gills indicates that this species has adapted to regulating its acid base balance in acidified waters  common in its natural habitat. Our study pinpoints the molecular response to elevated CO2 possibly triggering behavioural changes in zebrafish and suggest that not only marine  but also freshwater fishes will be behaviourally affected by acidification due to rapid climate change.,,,,,EB3,,replicate name:1|breed:AB|age:4 months|dev stage:adult|collection date:2021 11 02|geo loc name:Hong Kong|sex:not determined|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of 4mpf Danio rerio brain,EB3,EB3,Total RNA was extracted using the RNeasy Micro Kit Qiagen.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP503258,,,EB3_1.fastq.gz EB3_2.fastq.gz,fastq fastq,9627538030.0,31879265.0,EB3 1.fastq.gz,0:151 1:151,A:2735805884;C:2063838700;G:2168523582;T:2659242105;N:127759,151,151,,,2735805884,2063838700,2168523582,2659242105,127759,SRX24328690,SRS21089994,SRA1849282,The University of Hong Kong|School of Biological Sciences,The University of Hong Kong,2,0.92558,0.92158,0.18877,0.18982,0.71752,0.71865,0.57954,0.58018,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2024-04-22,Adult,Adult,Brain,Nervous System
39646,SRR2020638,SRX1030028,SRS938356,SRP058038,PRJNA283169,Danio rerio Raw sequence reads,PRJNA283169,Other,RNA sequencing of whole head and Hcrt cells of 6dpf larvae zebrafish.,,,,EGFP  1,EGFP ,,breed:AB|dev stage:6dpf|sex:pooled male and female|tissue:neurons|BioSampleModel:Model organism or animal,,,,,,,,,Transcriptional profiling of hypocretin neurons identifies the sleep regulator Kcnh4a,EGFP  3,EGFP  3,EGFP negative FAC sorted neurons representing cells from the whole head that are not Hcrt neurons. Biological replicate 3,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,SRP058038,,,6_yelin_CTTGTA_L006_R1_001.fastq,fastq,203005250.0,4060105.0,EGFP   3,0:50,A:55382833;C:45271153;G:41975627;T:56203763;N:4171874,50,,,,55382833,45271153,41975627,56203763,4171874,SRX1030028,SRS938356,SRA266465,Bar Ilan University|Dr. Lior Appelbaum,Bar Ilan University,1,0.66895,,0.34237,,0.80612,,0.54884,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Israel,2015-05-13,Larval,Larval,Brain,Nervous System
39647,SRR2020637,SRX1030025,SRS938358,SRP058038,PRJNA283169,Danio rerio Raw sequence reads,PRJNA283169,Other,RNA sequencing of whole head and Hcrt cells of 6dpf larvae zebrafish.,,,,EGFP+ 2,EGFP+,,breed:AB|dev stage:6dpf|sex:pooled male and female|tissue:neurons|BioSampleModel:Model organism or animal,,,,,,,,,Transcriptional profiling of hypocretin neurons identifies the sleep regulator Kcnh4a,EGFP+ 3,EGFP+ 3,EGFP FAC sorted cell representing Hcrt neurons. Biological replicate 3,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,SRP058038,,loader:latf load,5_yelin_GGCTAC_L002_R2_001.fastq 5_yelin_GGCTAC_L002_R1_001.fastq,fastq fastq,1560921064.0,7727332.0,EGFP+ 3,0:101 1:101,A:457609649;C:326096117;G:333133118;T:425493422;N:18588758,101,101,,,457609649,326096117,333133118,425493422,18588758,SRX1030025,SRS938358,SRA266465,Bar Ilan University|Dr. Lior Appelbaum,Bar Ilan University,2,0.70147,0.67398,0.38233,0.37219,0.76611,0.78459,0.55856,0.56314,101,101,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Israel,2015-05-18,Larval,Larval,Brain,Nervous System
39648,SRR2020632,SRX1030012,SRS938358,SRP058038,PRJNA283169,Danio rerio Raw sequence reads,PRJNA283169,Other,RNA sequencing of whole head and Hcrt cells of 6dpf larvae zebrafish.,,,,EGFP+ 2,EGFP+,,breed:AB|dev stage:6dpf|sex:pooled male and female|tissue:neurons|BioSampleModel:Model organism or animal,,,,,,,,,Transcriptional profiling of hypocretin neurons identifies the sleep regulator Kcnh4a,EGFP+ 2,EGFP+ 2,1,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,SRP058038,,,3_yelin_GATCAG_L006_R1_001.fastq,fastq,224054800.0,4481096.0,EGFP+ 2,0:50,A:65453830;C:45018543;G:43270590;T:65387888;N:4923949,50,,,,65453830,45018543,43270590,65387888,4923949,SRX1030012,SRS938358,SRA266465,Bar Ilan University|Dr. Lior Appelbaum,Bar Ilan University,1,0.69174,,0.54164,,0.78522,,0.52912,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Israel,2016-05-06,Larval,Larval,Brain,Nervous System
39649,SRR2020597,SRX1030009,SRS938356,SRP058038,PRJNA283169,Danio rerio Raw sequence reads,PRJNA283169,Other,RNA sequencing of whole head and Hcrt cells of 6dpf larvae zebrafish.,,,,EGFP  1,EGFP ,,breed:AB|dev stage:6dpf|sex:pooled male and female|tissue:neurons|BioSampleModel:Model organism or animal,,,,,,,,,Transcriptional profiling of hypocretin neurons identifies the sleep regulator Kcnh4a,EGFP  1,1,1,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 2000,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>50</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,SRP058038,,,2_yelin_ACTTGA_L006_R1_001.fastq,fastq,447487500.0,8949750.0,EGFP  1,0:50,A:125532720;C:96024111;G:89577716;T:126552915;N:9800038,50,,,,125532720,96024111,89577716,126552915,9800038,SRX1030009,SRS938356,SRA266465,Bar Ilan University|Dr. Lior Appelbaum,Bar Ilan University,1,0.70983,,0.38959,,0.79592,,0.54277,,50,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Israel,2015-05-14,Larval,Larval,Brain,Nervous System
40710,SRR3420426,SRX1660364,SRS1360332,SRP072296,PRJNA316313,Codon optimality and mRNA decay in zebrafish and Xenopus,PRJNA316313,Other,Cellular transitions require dramatic changes in gene expression that are supported by regulated mRNA decay and new transcription. The maternal to zygotic transition is a conserved developmental progression during which thousands of maternal mRNAs are cleared by posttranscriptional mechanisms. Although some maternal mRNAs are targeted for degradation by microRNAs  this pathway does not fully explain mRNA clearance. Because the ribosome constitutes the main ribonucleoprotein complex decoding the mRNA  we investigated how codon identity and translation affect mRNA stability during development and homeostasis. Using an in vivo selection strategy  we show that the codon triplet contains translation dependent regulatory information that influences transcript decay. We find that codon composition shapes maternal mRNA clearance during the maternal to zygotic transition in zebrafish  Xenopus  mouse and Drosophila  and gene expression during homeostasis across human tissues. Codon composition affects both polyadenylation status and translation efficiency. Thus  the ribosome interprets two codes within the mRNA  the genetic code which specifies the amino acid sequence  and a conserved “codon optimality code” that shapes mRNA stability and translation efficiency across vertebrates.,,,,,AG01294 brain,,strain:TUAB|age:adult|sex:pooled male and female|tissue:Brain|BioSampleModel:Model organism or animal,,,,,,,,,AG01294 brain,AG01294 brain,1,1,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina HiSeq 2500,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>75</SPOT_LENGTH><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,SRP072296,,,AG01294_SEQ0273_R1.fastq.gz,fastq,1145056584.0,15066534.0,AG01294 run 1,0:76,A:325357280;C:243794215;G:244221355;T:331630380;N:53354,76,,,,325357280,243794215,244221355,331630380,53354,SRX1660364,SRS1360332,SRA395141,Yale University|Giraldez Lab,Yale University,1,0.92515,,0.20551,,0.69128,,0.50216,,76,,B,,usable mapping rate,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,United States,2016-06-17,Adult,Adult,Brain,Nervous System
68349,SRR17714692,SRX13877717,SRS11747891,SRP356388,PRJNA799842,RNA seq of CRISPR/Cas9 mediated genome editing zebrafishes; the alligator pipefish spleen and the small white organ of the lined seahorse.,PRJNA799842,Other,To explore the function of the gene in spleen development  we generated a knockout zebrafish line. To investigate whether the phenotypic consequences in the seahorses were caused by a missense mutation in this gene  we generated a point mutation zebrafish line by CRISPR/Cas9 mediated homologous recombination HR. RNA seq of these samples tissues brain  liver  kidney  and intestine were analyzed. In addition  to clarify the splenic phenotype of the Syngnathidaes  the transcriptomic profiles of the S. biaculeatus spleens and the H. erectus small white organ were also sampled and sequenced.,,,,,WT br 4,,strain:AB type|isolate:wild type|breed:WT br 4|age:3 month|dev stage:NA|sex:NA|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish,WT br 4,WT br 4,RNA seq,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP356388,,loader:fastq load.py,Daniorerio_WT-br-4_good_1.fq.gz Daniorerio_WT-br-4_good_2.fq.gz,fastq fastq,7496868324.0,25083735.0,Daniorerio WT br 4 good 1.fq.gz,0:149.44 1:149.44,A:2075060953;C:1661290867;G:1697443641;T:2062703710;N:369153,149,149,,,2075060953,1661290867,1697443641,2062703710,369153,SRX13877717,SRS11747891,SRA1360632,South China Sea Institute of Oceanology|CAS Key Laboratory of Tropical Marine Bio-Resource,South China Sea Institute of Oceanology,2,0.92105,0.9212,0.17618,0.17502,0.68844,0.69035,0.48965,0.48899,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-01-27,Adult,Adult,Brain,Nervous System
68350,SRR17714693,SRX13877716,SRS11747889,SRP356388,PRJNA799842,RNA seq of CRISPR/Cas9 mediated genome editing zebrafishes; the alligator pipefish spleen and the small white organ of the lined seahorse.,PRJNA799842,Other,To explore the function of the gene in spleen development  we generated a knockout zebrafish line. To investigate whether the phenotypic consequences in the seahorses were caused by a missense mutation in this gene  we generated a point mutation zebrafish line by CRISPR/Cas9 mediated homologous recombination HR. RNA seq of these samples tissues brain  liver  kidney  and intestine were analyzed. In addition  to clarify the splenic phenotype of the Syngnathidaes  the transcriptomic profiles of the S. biaculeatus spleens and the H. erectus small white organ were also sampled and sequenced.,,,,,WT br 3,,strain:AB type|isolate:wild type|breed:WT br 3|age:3 month|dev stage:NA|sex:NA|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish,WT br 3,WT br 3,RNA seq,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP356388,,loader:fastq load.py,Daniorerio_WT-br-3_good_1.fq.gz Daniorerio_WT-br-3_good_2.fq.gz,fastq fastq,6073470194.0,20313710.0,Daniorerio WT br 3 good 1.fq.gz,0:149.49 1:149.49,A:1713896651;C:1313013182;G:1348015489;T:1698243797;N:301075,149,149,,,1713896651,1313013182,1348015489,1698243797,301075,SRX13877716,SRS11747889,SRA1360632,South China Sea Institute of Oceanology|CAS Key Laboratory of Tropical Marine Bio-Resource,South China Sea Institute of Oceanology,2,0.91892,0.91619,0.18079,0.17925,0.68864,0.69039,0.49157,0.48629,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-01-27,Adult,Adult,Brain,Nervous System
68351,SRR17714694,SRX13877715,SRS11747887,SRP356388,PRJNA799842,RNA seq of CRISPR/Cas9 mediated genome editing zebrafishes; the alligator pipefish spleen and the small white organ of the lined seahorse.,PRJNA799842,Other,To explore the function of the gene in spleen development  we generated a knockout zebrafish line. To investigate whether the phenotypic consequences in the seahorses were caused by a missense mutation in this gene  we generated a point mutation zebrafish line by CRISPR/Cas9 mediated homologous recombination HR. RNA seq of these samples tissues brain  liver  kidney  and intestine were analyzed. In addition  to clarify the splenic phenotype of the Syngnathidaes  the transcriptomic profiles of the S. biaculeatus spleens and the H. erectus small white organ were also sampled and sequenced.,,,,,WT br 2,,strain:AB type|isolate:wild type|breed:WT br 2|age:3 month|dev stage:NA|sex:NA|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish,WT br 2,WT br 2,RNA seq,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP356388,,loader:fastq load.py,Daniorerio_WT-br-2_good_1.fq.gz Daniorerio_WT-br-2_good_2.fq.gz,fastq fastq,6877930220.0,23036331.0,Daniorerio WT br 2 good 1.fq.gz,0:149.28 1:149.28,A:1905660754;C:1522223390;G:1554569711;T:1895137309;N:339056,149,149,,,1905660754,1522223390,1554569711,1895137309,339056,SRX13877715,SRS11747887,SRA1360632,South China Sea Institute of Oceanology|CAS Key Laboratory of Tropical Marine Bio-Resource,South China Sea Institute of Oceanology,2,0.9194,0.919,0.17062,0.16948,0.69408,0.69501,0.49041,0.46872,101,101,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-01-27,Adult,Adult,Brain,Nervous System
68352,SRR17714695,SRX13877714,SRS11747888,SRP356388,PRJNA799842,RNA seq of CRISPR/Cas9 mediated genome editing zebrafishes; the alligator pipefish spleen and the small white organ of the lined seahorse.,PRJNA799842,Other,To explore the function of the gene in spleen development  we generated a knockout zebrafish line. To investigate whether the phenotypic consequences in the seahorses were caused by a missense mutation in this gene  we generated a point mutation zebrafish line by CRISPR/Cas9 mediated homologous recombination HR. RNA seq of these samples tissues brain  liver  kidney  and intestine were analyzed. In addition  to clarify the splenic phenotype of the Syngnathidaes  the transcriptomic profiles of the S. biaculeatus spleens and the H. erectus small white organ were also sampled and sequenced.,,,,,WT br 1,,strain:AB type|isolate:wild type|breed:WT br 1|age:3 month|dev stage:NA|sex:NA|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish,WT br 1,WT br 1,RNA seq,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP356388,,loader:fastq load.py,Daniorerio_WT-br-1_good_1.fq.gz Daniorerio_WT-br-1_good_2.fq.gz,fastq fastq,6677275476.0,22349958.0,Daniorerio WT br 1 good 1.fq.gz,0:149.38 1:149.38,A:1851526469;C:1477465442;G:1505977213;T:1841977322;N:329030,149,149,,,1851526469,1477465442,1505977213,1841977322,329030,SRX13877714,SRS11747888,SRA1360632,South China Sea Institute of Oceanology|CAS Key Laboratory of Tropical Marine Bio-Resource,South China Sea Institute of Oceanology,2,0.91982,0.9189,0.16897,0.16834,0.69631,0.69802,0.48999,0.49186,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-01-27,Adult,Adult,Brain,Nervous System
68355,SRR17714698,SRX13877711,SRS11747883,SRP356388,PRJNA799842,RNA seq of CRISPR/Cas9 mediated genome editing zebrafishes; the alligator pipefish spleen and the small white organ of the lined seahorse.,PRJNA799842,Other,To explore the function of the gene in spleen development  we generated a knockout zebrafish line. To investigate whether the phenotypic consequences in the seahorses were caused by a missense mutation in this gene  we generated a point mutation zebrafish line by CRISPR/Cas9 mediated homologous recombination HR. RNA seq of these samples tissues brain  liver  kidney  and intestine were analyzed. In addition  to clarify the splenic phenotype of the Syngnathidaes  the transcriptomic profiles of the S. biaculeatus spleens and the H. erectus small white organ were also sampled and sequenced.,,,,,KO br 4,,strain:AB type|isolate:knockout|breed:KO br 4|age:3 month|dev stage:NA|sex:NA|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish,KO br 4,KO br 4,RNA seq,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP356388,,loader:fastq load.py,Daniorerio_KO-br-4_good_1.fq.gz Daniorerio_KO-br-4_good_2.fq.gz,fastq fastq,7447389410.0,24933883.0,Daniorerio KO br 4 good 1.fq.gz,0:149.34 1:149.34,A:2068669098;C:1645485987;G:1683682550;T:2049528614;N:23161,149,149,,,2068669098,1645485987,1683682550,2049528614,23161,SRX13877711,SRS11747883,SRA1360632,South China Sea Institute of Oceanology|CAS Key Laboratory of Tropical Marine Bio-Resource,South China Sea Institute of Oceanology,2,0.91528,0.91474,0.16702,0.16723,0.69004,0.69132,0.48334,0.48557,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-01-27,Adult,Adult,Brain,Nervous System
68366,SRR17714709,SRX13877700,SRS11747872,SRP356388,PRJNA799842,RNA seq of CRISPR/Cas9 mediated genome editing zebrafishes; the alligator pipefish spleen and the small white organ of the lined seahorse.,PRJNA799842,Other,To explore the function of the gene in spleen development  we generated a knockout zebrafish line. To investigate whether the phenotypic consequences in the seahorses were caused by a missense mutation in this gene  we generated a point mutation zebrafish line by CRISPR/Cas9 mediated homologous recombination HR. RNA seq of these samples tissues brain  liver  kidney  and intestine were analyzed. In addition  to clarify the splenic phenotype of the Syngnathidaes  the transcriptomic profiles of the S. biaculeatus spleens and the H. erectus small white organ were also sampled and sequenced.,,,,,KO br 3,,strain:AB type|isolate:knockout|breed:KO br 3|age:3 month|dev stage:NA|sex:NA|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish,KO br 3,KO br 3,RNA seq,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP356388,,loader:fastq load.py,Daniorerio_KO-br-3_good_1.fq.gz Daniorerio_KO-br-3_good_2.fq.gz,fastq fastq,7677925588.0,25687375.0,Daniorerio KO br 3 good 1.fq.gz,0:149.45 1:149.45,A:2141293019;C:1686478627;G:1724464315;T:2125665018;N:24609,149,149,,,2141293019,1686478627,1724464315,2125665018,24609,SRX13877700,SRS11747872,SRA1360632,South China Sea Institute of Oceanology|CAS Key Laboratory of Tropical Marine Bio-Resource,South China Sea Institute of Oceanology,2,0.9154,0.91488,0.17232,0.17035,0.69227,0.69449,0.47379,0.48628,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-01-27,Adult,Adult,Brain,Nervous System
68367,SRR17714710,SRX13877699,SRS11747873,SRP356388,PRJNA799842,RNA seq of CRISPR/Cas9 mediated genome editing zebrafishes; the alligator pipefish spleen and the small white organ of the lined seahorse.,PRJNA799842,Other,To explore the function of the gene in spleen development  we generated a knockout zebrafish line. To investigate whether the phenotypic consequences in the seahorses were caused by a missense mutation in this gene  we generated a point mutation zebrafish line by CRISPR/Cas9 mediated homologous recombination HR. RNA seq of these samples tissues brain  liver  kidney  and intestine were analyzed. In addition  to clarify the splenic phenotype of the Syngnathidaes  the transcriptomic profiles of the S. biaculeatus spleens and the H. erectus small white organ were also sampled and sequenced.,,,,,MU br 4,,strain:AB type|isolate:point mutation|breed:MU br 4|age:3 month|dev stage:NA|sex:NA|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish,MU br 4,MU br 4,RNA seq,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP356388,,loader:fastq load.py,Daniorerio_MU-br-4_good_1.fq.gz Daniorerio_MU-br-4_good_2.fq.gz,fastq fastq,7375252226.0,24699759.0,Daniorerio MU br 4 good 1.fq.gz,0:149.30 1:149.30,A:2085033695;C:1591116585;G:1620970196;T:2077764269;N:367481,149,149,,,2085033695,1591116585,1620970196,2077764269,367481,SRX13877699,SRS11747873,SRA1360632,South China Sea Institute of Oceanology|CAS Key Laboratory of Tropical Marine Bio-Resource,South China Sea Institute of Oceanology,2,0.911,0.90829,0.19059,0.18896,0.6842,0.68592,0.49423,0.49913,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-01-27,Adult,Adult,Brain,Nervous System
68368,SRR17714711,SRX13877698,SRS11747871,SRP356388,PRJNA799842,RNA seq of CRISPR/Cas9 mediated genome editing zebrafishes; the alligator pipefish spleen and the small white organ of the lined seahorse.,PRJNA799842,Other,To explore the function of the gene in spleen development  we generated a knockout zebrafish line. To investigate whether the phenotypic consequences in the seahorses were caused by a missense mutation in this gene  we generated a point mutation zebrafish line by CRISPR/Cas9 mediated homologous recombination HR. RNA seq of these samples tissues brain  liver  kidney  and intestine were analyzed. In addition  to clarify the splenic phenotype of the Syngnathidaes  the transcriptomic profiles of the S. biaculeatus spleens and the H. erectus small white organ were also sampled and sequenced.,,,,,MU br 3,,strain:AB type|isolate:point mutation|breed:MU br 3|age:3 month|dev stage:NA|sex:NA|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish,MU br 3,MU br 3,RNA seq,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP356388,,loader:fastq load.py,Daniorerio_MU-br-3_good_1.fq.gz Daniorerio_MU-br-3_good_2.fq.gz,fastq fastq,8829806410.0,29560399.0,Daniorerio MU br 3 good 1.fq.gz,0:149.35 1:149.35,A:2496211455;C:1905517808;G:1942497707;T:2485137146;N:442294,149,149,,,2496211455,1905517808,1942497707,2485137146,442294,SRX13877698,SRS11747871,SRA1360632,South China Sea Institute of Oceanology|CAS Key Laboratory of Tropical Marine Bio-Resource,South China Sea Institute of Oceanology,2,0.91669,0.91532,0.19181,0.19077,0.69568,0.69589,0.48604,0.48561,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-01-27,Adult,Adult,Brain,Nervous System
68369,SRR17714712,SRX13877697,SRS11747869,SRP356388,PRJNA799842,RNA seq of CRISPR/Cas9 mediated genome editing zebrafishes; the alligator pipefish spleen and the small white organ of the lined seahorse.,PRJNA799842,Other,To explore the function of the gene in spleen development  we generated a knockout zebrafish line. To investigate whether the phenotypic consequences in the seahorses were caused by a missense mutation in this gene  we generated a point mutation zebrafish line by CRISPR/Cas9 mediated homologous recombination HR. RNA seq of these samples tissues brain  liver  kidney  and intestine were analyzed. In addition  to clarify the splenic phenotype of the Syngnathidaes  the transcriptomic profiles of the S. biaculeatus spleens and the H. erectus small white organ were also sampled and sequenced.,,,,,MU br 2,,strain:AB type|isolate:point mutation|breed:MU br 2|age:3 month|dev stage:NA|sex:NA|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish,MU br 2,MU br 2,RNA seq,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP356388,,loader:fastq load.py,Daniorerio_MU-br-2_good_1.fq.gz Daniorerio_MU-br-2_good_2.fq.gz,fastq fastq,7338057954.0,24598168.0,Daniorerio MU br 2 good 1.fq.gz,0:149.16 1:149.16,A:2058068771;C:1600708765;G:1631740601;T:2047172313;N:367504,149,149,,,2058068771,1600708765,1631740601,2047172313,367504,SRX13877697,SRS11747869,SRA1360632,South China Sea Institute of Oceanology|CAS Key Laboratory of Tropical Marine Bio-Resource,South China Sea Institute of Oceanology,2,0.91566,0.91378,0.18522,0.18394,0.69201,0.69236,0.4969,0.49242,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-01-27,Adult,Adult,Brain,Nervous System
68370,SRR17714713,SRX13877696,SRS11747870,SRP356388,PRJNA799842,RNA seq of CRISPR/Cas9 mediated genome editing zebrafishes; the alligator pipefish spleen and the small white organ of the lined seahorse.,PRJNA799842,Other,To explore the function of the gene in spleen development  we generated a knockout zebrafish line. To investigate whether the phenotypic consequences in the seahorses were caused by a missense mutation in this gene  we generated a point mutation zebrafish line by CRISPR/Cas9 mediated homologous recombination HR. RNA seq of these samples tissues brain  liver  kidney  and intestine were analyzed. In addition  to clarify the splenic phenotype of the Syngnathidaes  the transcriptomic profiles of the S. biaculeatus spleens and the H. erectus small white organ were also sampled and sequenced.,,,,,MU br 1,,strain:AB type|isolate:point mutation|breed:MU br 1|age:3 month|dev stage:NA|sex:NA|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish,MU br 1,MU br 1,RNA seq,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP356388,,loader:fastq load.py,Daniorerio_MU-br-1_good_1.fq.gz Daniorerio_MU-br-1_good_2.fq.gz,fastq fastq,8217544426.0,27571297.0,Daniorerio MU br 1 good 1.fq.gz,0:149.02 1:149.02,A:2292077990;C:1805071065;G:1840323909;T:2279661276;N:410186,149,149,,,2292077990,1805071065,1840323909,2279661276,410186,SRX13877696,SRS11747870,SRA1360632,South China Sea Institute of Oceanology|CAS Key Laboratory of Tropical Marine Bio-Resource,South China Sea Institute of Oceanology,2,0.91869,0.91663,0.1747,0.17413,0.69369,0.69479,0.46987,0.47898,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-01-27,Adult,Adult,Brain,Nervous System
68377,SRR17714720,SRX13877689,SRS11747861,SRP356388,PRJNA799842,RNA seq of CRISPR/Cas9 mediated genome editing zebrafishes; the alligator pipefish spleen and the small white organ of the lined seahorse.,PRJNA799842,Other,To explore the function of the gene in spleen development  we generated a knockout zebrafish line. To investigate whether the phenotypic consequences in the seahorses were caused by a missense mutation in this gene  we generated a point mutation zebrafish line by CRISPR/Cas9 mediated homologous recombination HR. RNA seq of these samples tissues brain  liver  kidney  and intestine were analyzed. In addition  to clarify the splenic phenotype of the Syngnathidaes  the transcriptomic profiles of the S. biaculeatus spleens and the H. erectus small white organ were also sampled and sequenced.,,,,,KO br 2,,strain:AB type|isolate:knockout|breed:KO br 2|age:3 month|dev stage:NA|sex:NA|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish,KO br 2,KO br 2,RNA seq,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP356388,,loader:fastq load.py,Daniorerio_KO-br-2_good_1.fq.gz Daniorerio_KO-br-2_good_2.fq.gz,fastq fastq,6926366374.0,23168782.0,Daniorerio KO br 2 good 1.fq.gz,0:149.48 1:149.48,A:1935071993;C:1518964140;G:1551567622;T:1920740127;N:22492,149,149,,,1935071993,1518964140,1551567622,1920740127,22492,SRX13877689,SRS11747861,SRA1360632,South China Sea Institute of Oceanology|CAS Key Laboratory of Tropical Marine Bio-Resource,South China Sea Institute of Oceanology,2,0.91501,0.91449,0.16712,0.16608,0.68927,0.68974,0.49324,0.4917,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-01-27,Adult,Adult,Brain,Nervous System
68378,SRR17714721,SRX13877688,SRS11747862,SRP356388,PRJNA799842,RNA seq of CRISPR/Cas9 mediated genome editing zebrafishes; the alligator pipefish spleen and the small white organ of the lined seahorse.,PRJNA799842,Other,To explore the function of the gene in spleen development  we generated a knockout zebrafish line. To investigate whether the phenotypic consequences in the seahorses were caused by a missense mutation in this gene  we generated a point mutation zebrafish line by CRISPR/Cas9 mediated homologous recombination HR. RNA seq of these samples tissues brain  liver  kidney  and intestine were analyzed. In addition  to clarify the splenic phenotype of the Syngnathidaes  the transcriptomic profiles of the S. biaculeatus spleens and the H. erectus small white organ were also sampled and sequenced.,,,,,KO br 1,,strain:AB type|isolate:knockout|breed:KO br 1|age:3 month|dev stage:NA|sex:NA|tissue:brain|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish,KO br 1,KO br 1,RNA seq,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 2500,,SRP356388,,loader:fastq load.py,Daniorerio_KO-br-1_good_1.fq.gz Daniorerio_KO-br-1_good_2.fq.gz,fastq fastq,8695204456.0,29088179.0,Daniorerio KO br 1 good 1.fq.gz,0:149.46 1:149.46,A:2427675374;C:1907757731;G:1949179978;T:2410564055;N:27318,149,149,,,2427675374,1907757731,1949179978,2410564055,27318,SRX13877688,SRS11747862,SRA1360632,South China Sea Institute of Oceanology|CAS Key Laboratory of Tropical Marine Bio-Resource,South China Sea Institute of Oceanology,2,0.9149,0.91459,0.16735,0.1673,0.68954,0.69023,0.49497,0.49633,116,116,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-01-27,Adult,Adult,Brain,Nervous System
70109,SRR19561929,SRX15614021,SRS13314715,SRP378802,PRJNA846110,Danio rerio Raw sequence reads,PRJNA846110,Other,Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio,,,,Dr13 3,Dr13 3,,strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:13 replicate 3|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio: adult female 54 13 3 Brain,54 13 3 Brain,54 13 3 Brain,All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2  Vazyme Biotech Co.  Ltd  NR612 02  and subjected to 150bp paired end sequencing on a Novaseq 6053 illumina platform.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP378802,,,54-13-3-Brain-RNA_R1.fq.gz 54-13-3-Brain-RNA_R2.fq.gz,fastq fastq,8519592000.0,28398640.0,54 13 3 Brain RNA R1.fq.gz,0:150 1:150,A:2380407110;C:1852161157;G:1886481748;T:2400379887;N:162098,150,150,,,2380407110,1852161157,1886481748,2400379887,162098,SRX15614021,SRS13314715,SRA1432943,shanghai ocean university|College of Fisheries and Life Science,shanghai ocean university,2,0.92362,0.924,0.15682,0.15728,0.70926,0.71394,0.49285,0.50156,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-06-07,Adult,Adult,Brain,Nervous System
70113,SRR19561933,SRX15614017,SRS13314707,SRP378802,PRJNA846110,Danio rerio Raw sequence reads,PRJNA846110,Other,Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio,,,,Dr27 1,Dr27 1,,strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:27 replicate 1|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio: adult female 46 27 1 Brain,46 27 1 Brain,46 27 1 Brain,All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2  Vazyme Biotech Co.  Ltd  NR612 02  and subjected to 150bp paired end sequencing on a Novaseq 6005 illumina platform.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP378802,,,46-27-1-Brain-RNA_R1.fq.gz 46-27-1-Brain-RNA_R2.fq.gz,fastq fastq,6987525300.0,23291751.0,46 27 1 Brain RNA R1.fq.gz,0:150 1:150,A:2005854815;C:1466721021;G:1498208671;T:2016609597;N:131196,150,150,,,2005854815,1466721021,1498208671,2016609597,131196,SRX15614017,SRS13314707,SRA1432943,shanghai ocean university|College of Fisheries and Life Science,shanghai ocean university,2,0.9217,0.92302,0.16019,0.15936,0.7218,0.72665,0.51402,0.49955,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-06-07,Adult,Adult,Brain,Nervous System
70116,SRR19561936,SRX15614014,SRS13314714,SRP378802,PRJNA846110,Danio rerio Raw sequence reads,PRJNA846110,Other,Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio,,,,Dr13 2,Dr13 2,,strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:13 replicate 2|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio: adult female 53 13 2 Brain,53 13 2 Brain,53 13 2 Brain,All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2  Vazyme Biotech Co.  Ltd  NR612 02  and subjected to 150bp paired end sequencing on a Novaseq 6047 illumina platform.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP378802,,,53-13-2-Brain-RNA_R1.fq.gz 53-13-2-Brain-RNA_R2.fq.gz,fastq fastq,7058502300.0,23528341.0,53 13 2 Brain RNA R1.fq.gz,0:150 1:150,A:1992967170;C:1514239722;G:1545290515;T:2005873325;N:131568,150,150,,,1992967170,1514239722,1545290515,2005873325,131568,SRX15614014,SRS13314714,SRA1432943,shanghai ocean university|College of Fisheries and Life Science,shanghai ocean university,2,0.92235,0.92276,0.16057,0.16091,0.71226,0.71873,0.49675,0.49871,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-06-07,Adult,Adult,Brain,Nervous System
70122,SRR19561942,SRX15614008,SRS13314713,SRP378802,PRJNA846110,Danio rerio Raw sequence reads,PRJNA846110,Other,Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio,,,,Dr13 1,Dr13 1,,strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:13 replicate 1|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio: adult female 52 13 1 Brain,52 13 1 Brain,52 13 1 Brain,All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2  Vazyme Biotech Co.  Ltd  NR612 02  and subjected to 150bp paired end sequencing on a Novaseq 6041 illumina platform.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP378802,,,52-13-1-Brain-RNA_R1.fq.gz 52-13-1-Brain-RNA_R2.fq.gz,fastq fastq,6564342900.0,21881143.0,52 13 1 Brain RNA R1.fq.gz,0:150 1:150,A:1875036799;C:1388864833;G:1412506225;T:1887810961;N:124082,150,150,,,1875036799,1388864833,1412506225,1887810961,124082,SRX15614008,SRS13314713,SRA1432943,shanghai ocean university|College of Fisheries and Life Science,shanghai ocean university,2,0.92113,0.9218,0.16856,0.16862,0.71147,0.71776,0.48601,0.50846,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-06-07,Adult,Adult,Brain,Nervous System
70129,SRR19561949,SRX15614001,SRS13314712,SRP378802,PRJNA846110,Danio rerio Raw sequence reads,PRJNA846110,Other,Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio,,,,Dr18 3,Dr18 3,,strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:18 replicate 3|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio: adult female 51 18 3 Brain,51 18 3 Brain,51 18 3 Brain,All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2  Vazyme Biotech Co.  Ltd  NR612 02  and subjected to 150bp paired end sequencing on a Novaseq 6035 illumina platform.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP378802,,,51-18-3-Brain-RNA_R1.fq.gz 51-18-3-Brain-RNA_R2.fq.gz,fastq fastq,6606239700.0,22020799.0,51 18 3 Brain RNA R1.fq.gz,0:150 1:150,A:1885996342;C:1397743068;G:1420407935;T:1901969274;N:123081,150,150,,,1885996342,1397743068,1420407935,1901969274,123081,SRX15614001,SRS13314712,SRA1432943,shanghai ocean university|College of Fisheries and Life Science,shanghai ocean university,2,0.92037,0.92037,0.17349,0.17351,0.7134,0.71961,0.49757,0.5036,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-06-07,Adult,Adult,Brain,Nervous System
70136,SRR19561956,SRX15613994,SRS13314711,SRP378802,PRJNA846110,Danio rerio Raw sequence reads,PRJNA846110,Other,Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio,,,,Dr18 2,Dr18 2,,strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:18 replicate 2|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio: adult female 50 18 2 Brain,50 18 2 Brain,50 18 2 Brain,All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2  Vazyme Biotech Co.  Ltd  NR612 02  and subjected to 150bp paired end sequencing on a Novaseq 6029 illumina platform.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP378802,,,50-18-2-Brain-RNA_R1.fq.gz 50-18-2-Brain-RNA_R2.fq.gz,fastq fastq,6281424600.0,20938082.0,50 18 2 Brain RNA R1.fq.gz,0:150 1:150,A:1790409321;C:1331778838;G:1355326334;T:1803791514;N:118593,150,150,,,1790409321,1331778838,1355326334,1803791514,118593,SRX15613994,SRS13314711,SRA1432943,shanghai ocean university|College of Fisheries and Life Science,shanghai ocean university,2,0.92329,0.92423,0.16356,0.16369,0.71788,0.72366,0.50986,0.51265,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-06-07,Adult,Adult,Brain,Nervous System
70142,SRR19561962,SRX15613988,SRS13314710,SRP378802,PRJNA846110,Danio rerio Raw sequence reads,PRJNA846110,Other,Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio,,,,Dr18 1,Dr18 1,,strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:18 replicate 1|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio: adult female 49 18 1 Brain,49 18 1 Brain,49 18 1 Brain,All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2  Vazyme Biotech Co.  Ltd  NR612 02  and subjected to 150bp paired end sequencing on a Novaseq 6023 illumina platform.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP378802,,,49-18-1-Brain-RNA_R1.fq.gz 49-18-1-Brain-RNA_R2.fq.gz,fastq fastq,7316116800.0,24387056.0,49 18 1 Brain RNA R1.fq.gz,0:150 1:150,A:2029219672;C:1605053166;G:1629415583;T:2052291110;N:137269,150,150,,,2029219672,1605053166,1629415583,2052291110,137269,SRX15613988,SRS13314710,SRA1432943,shanghai ocean university|College of Fisheries and Life Science,shanghai ocean university,2,0.92845,0.92831,0.15339,0.15343,0.70163,0.70818,0.50561,0.49113,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-06-07,Adult,Adult,Brain,Nervous System
70149,SRR19561969,SRX15613981,SRS13314709,SRP378802,PRJNA846110,Danio rerio Raw sequence reads,PRJNA846110,Other,Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio,,,,Dr27 3,Dr27 3,,strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:27 replicate 3|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio: adult female 48 27 3 Brain,48 27 3 Brain,48 27 3 Brain,All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2  Vazyme Biotech Co.  Ltd  NR612 02  and subjected to 150bp paired end sequencing on a Novaseq 6017 illumina platform.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP378802,,,48-27-3-Brain-RNA_R1.fq.gz 48-27-3-Brain-RNA_R2.fq.gz,fastq fastq,7425268800.0,24750896.0,48 27 3 Brain RNA R1.fq.gz,0:150 1:150,A:2180771736;C:1512927753;G:1541462587;T:2189964944;N:141780,150,150,,,2180771736,1512927753,1541462587,2189964944,141780,SRX15613981,SRS13314709,SRA1432943,shanghai ocean university|College of Fisheries and Life Science,shanghai ocean university,2,0.92505,0.92554,0.17225,0.17055,0.73162,0.73634,0.54078,0.54258,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-06-07,Adult,Adult,Brain,Nervous System
70155,SRR19561975,SRX15613975,SRS13314708,SRP378802,PRJNA846110,Danio rerio Raw sequence reads,PRJNA846110,Other,Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio,,,,Dr27 2,Dr27 2,,strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:27 replicate 2|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio: adult female 47 27 2 Brain,47 27 2 Brain,47 27 2 Brain,All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2  Vazyme Biotech Co.  Ltd  NR612 02  and subjected to 150bp paired end sequencing on a Novaseq 6011 illumina platform.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP378802,,,47-27-2-Brain-RNA_R1.fq.gz 47-27-2-Brain-RNA_R2.fq.gz,fastq fastq,8266981800.0,27556606.0,47 27 2 Brain RNA R1.fq.gz,0:150 1:150,A:2439238017;C:1674208335;G:1753393244;T:2400007685;N:134519,150,150,,,2439238017,1674208335,1753393244,2400007685,134519,SRX15613975,SRS13314708,SRA1432943,shanghai ocean university|College of Fisheries and Life Science,shanghai ocean university,2,0.93567,0.91255,0.15677,0.15133,0.73728,0.74059,0.58353,0.5211,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-06-07,Adult,Adult,Brain,Nervous System
75356,SRR24489425,SRX20274795,SRS17602489,SRP436765,PRJNA970658,Transcriptome analysis of Cygb1 Knockout in Zebrafish Danio rerio,PRJNA970658,Other,Cytoglobin Cygb is an evolutionary ancient heme protein with yet unclear physiological functions. Cygb might be involved in ROS detoxification  NO metabolism and lipid based signaling processes. Mammalian Cygb is ubiquitously expressed in all tissues. We used a CRISPR/Cas9 genome editing approach and generated a knockout of the penta coordinated cygb1 for in vivo analysis in zebrafish. Adult cygb1 knockouts develop phenotypic anomalies  including neoplasia of gonads  and weight loss. To identify the molecular mechanisms underlying the occurrence of these phenotypes and differentiate between function and effect of the knockout we compared the transcriptomes of cygb1 knockouts at different ages to age matched wild type WT zebrafish.,,,,Adult Brain F5,F5 WT brain N R1 001,,strain:Tuebingen|isolate:WT Brain F5|age:12 mpf|dev stage:adult|sex:male|tissue:brain|genotype:wildtype|BioSampleModel:Model organism or animal,,,,,,,,,RNAseq Zebrafish 12mpf Brain WT,F5 WT brain N,F5 WT brain N,Total RNA was extracted using the Crystal RNA Mini Kit following the instructions of the manufacturer. RNA samples were treated with DNaseI Qiagen  according to the manufacturers protocol. RNA concentration and quality for Illumina sequencing was measured by employing the TapeStation System 2200. A library for paired end sequencing was generated from 1 g total RNA.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP436765,,,F5-WT-brain-N_R1_001.fastq.gz F5-WT-brain-N_R2_001.fastq.gz,fastq fastq,6841055400.0,22803518.0,F5 WT brain N R1 001.fastq.gz,0:150 1:150,A:1812654704;C:1604487806;G:1679235049;T:1744234054;N:443787,150,150,,,1812654704,1604487806,1679235049,1744234054,443787,SRX20274795,SRS17602489,SRA1634682,University of Hamburg|Institute of Animal Cell and Systems Biology (IZS),University of Hamburg,2,0.93773,0.93874,0.10994,0.10853,0.69426,0.69818,0.51982,0.52431,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Germany,2023-05-10,Adult,Adult,Brain,Nervous System
75362,SRR24489431,SRX20274789,SRS17602483,SRP436765,PRJNA970658,Transcriptome analysis of Cygb1 Knockout in Zebrafish Danio rerio,PRJNA970658,Other,Cytoglobin Cygb is an evolutionary ancient heme protein with yet unclear physiological functions. Cygb might be involved in ROS detoxification  NO metabolism and lipid based signaling processes. Mammalian Cygb is ubiquitously expressed in all tissues. We used a CRISPR/Cas9 genome editing approach and generated a knockout of the penta coordinated cygb1 for in vivo analysis in zebrafish. Adult cygb1 knockouts develop phenotypic anomalies  including neoplasia of gonads  and weight loss. To identify the molecular mechanisms underlying the occurrence of these phenotypes and differentiate between function and effect of the knockout we compared the transcriptomes of cygb1 knockouts at different ages to age matched wild type WT zebrafish.,,,,Old KO Brain 6,Cygb1KO G 6 S32 R1 001,,strain:Tuebingen|isolate:Brain 6 Cygb1KO|age:24 mpf|dev stage:adult|sex:male|tissue:brain|genotype:cygb1 knockout|BioSampleModel:Model organism or animal,,,,,,,,,RNAseq Zebrafish 24mpf Brain Cygb1KO,Cygb1KO G 6S32,Cygb1KO G 6S32,Total RNA was extracted using the Crystal RNA Mini Kit following the instructions of the manufacturer. RNA samples were treated with DNaseI Qiagen  according to the manufacturers protocol. RNA concentration and quality for Illumina sequencing was measured by employing the TapeStation System 2200. A library for paired end sequencing was generated from 1 g total RNA.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP436765,,,Cygb1KO-G-6_S32_R1_001.fastq.gz Cygb1KO-G-6_S32_R2_001.fastq.gz,fastq fastq,9925695180.0,34149517.0,Cygb1KO G 6 S32 R1 001.fastq.gz,0:142.59 1:148.06,A:2929412339;C:1950048888;G:2154536328;T:2880617061;N:11080564,142,148,,,2929412339,1950048888,2154536328,2880617061,11080564,SRX20274789,SRS17602483,SRA1634682,University of Hamburg|Institute of Animal Cell and Systems Biology (IZS),University of Hamburg,2,0.9273,0.92531,0.25488,0.2525,0.71794,0.71561,0.53653,0.53821,149,149,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Germany,2023-05-10,Adult,Adult,Brain,Nervous System
75364,SRR24489433,SRX20274787,SRS17602478,SRP436765,PRJNA970658,Transcriptome analysis of Cygb1 Knockout in Zebrafish Danio rerio,PRJNA970658,Other,Cytoglobin Cygb is an evolutionary ancient heme protein with yet unclear physiological functions. Cygb might be involved in ROS detoxification  NO metabolism and lipid based signaling processes. Mammalian Cygb is ubiquitously expressed in all tissues. We used a CRISPR/Cas9 genome editing approach and generated a knockout of the penta coordinated cygb1 for in vivo analysis in zebrafish. Adult cygb1 knockouts develop phenotypic anomalies  including neoplasia of gonads  and weight loss. To identify the molecular mechanisms underlying the occurrence of these phenotypes and differentiate between function and effect of the knockout we compared the transcriptomes of cygb1 knockouts at different ages to age matched wild type WT zebrafish.,,,,Old KO Brain 4,Cygb1KO G 4 S31 R1 001,,strain:Tuebingen|isolate:Brain 4 Cygb1KO|age:24 mpf|dev stage:adult|sex:male|tissue:brain|genotype:cygb1 knockout|BioSampleModel:Model organism or animal,,,,,,,,,RNAseq Zebrafish 24mpf Brain Cygb1KO,Cygb1KO G 4S31,Cygb1KO G 4S31,Total RNA was extracted using the Crystal RNA Mini Kit following the instructions of the manufacturer. RNA samples were treated with DNaseI Qiagen  according to the manufacturers protocol. RNA concentration and quality for Illumina sequencing was measured by employing the TapeStation System 2200. A library for paired end sequencing was generated from 1 g total RNA.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP436765,,,Cygb1KO-G-4_S31_R1_001.fastq.gz Cygb1KO-G-4_S31_R2_001.fastq.gz,fastq fastq,9815347477.0,33708992.0,Cygb1KO G 4 S31 R1 001.fastq.gz,0:143.34 1:147.83,A:2847426769;C:1996151135;G:2157346007;T:2805302254;N:9121312,143,147,,,2847426769,1996151135,2157346007,2805302254,9121312,SRX20274787,SRS17602478,SRA1634682,University of Hamburg|Institute of Animal Cell and Systems Biology (IZS),University of Hamburg,2,0.93535,0.93362,0.22332,0.21868,0.70786,0.70579,0.51367,0.50733,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Germany,2023-05-10,Adult,Adult,Brain,Nervous System
75366,SRR24489435,SRX20274785,SRS17602477,SRP436765,PRJNA970658,Transcriptome analysis of Cygb1 Knockout in Zebrafish Danio rerio,PRJNA970658,Other,Cytoglobin Cygb is an evolutionary ancient heme protein with yet unclear physiological functions. Cygb might be involved in ROS detoxification  NO metabolism and lipid based signaling processes. Mammalian Cygb is ubiquitously expressed in all tissues. We used a CRISPR/Cas9 genome editing approach and generated a knockout of the penta coordinated cygb1 for in vivo analysis in zebrafish. Adult cygb1 knockouts develop phenotypic anomalies  including neoplasia of gonads  and weight loss. To identify the molecular mechanisms underlying the occurrence of these phenotypes and differentiate between function and effect of the knockout we compared the transcriptomes of cygb1 knockouts at different ages to age matched wild type WT zebrafish.,,,,Old KO Brain 3,Cygb1KO G 3 S30 R1 001,,strain:Tuebingen|isolate:Brain 3 Cygb1KO|age:24 mpf|dev stage:adult|sex:male|tissue:brain|genotype:cygb1 knockout|BioSampleModel:Model organism or animal,,,,,,,,,RNAseq Zebrafish 24mpf Brain Cygb1KO,Cygb1KO G 3S30,Cygb1KO G 3S30,Total RNA was extracted using the Crystal RNA Mini Kit following the instructions of the manufacturer. RNA samples were treated with DNaseI Qiagen  according to the manufacturers protocol. RNA concentration and quality for Illumina sequencing was measured by employing the TapeStation System 2200. A library for paired end sequencing was generated from 1 g total RNA.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP436765,,,Cygb1KO-G-3_S30_R1_001.fastq.gz Cygb1KO-G-3_S30_R2_001.fastq.gz,fastq fastq,6375806624.0,22076571.0,Cygb1KO G 3 S30 R1 001.fastq.gz,0:140.65 1:148.15,A:1838824763;C:1269837958;G:1450334143;T:1807137695;N:9672065,140,148,,,1838824763,1269837958,1450334143,1807137695,9672065,SRX20274785,SRS17602477,SRA1634682,University of Hamburg|Institute of Animal Cell and Systems Biology (IZS),University of Hamburg,2,0.93667,0.93108,0.22667,0.22219,0.71131,0.70883,0.51796,0.50211,149,149,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Germany,2023-05-10,Adult,Adult,Brain,Nervous System
75369,SRR24489438,SRX20274782,SRS17602473,SRP436765,PRJNA970658,Transcriptome analysis of Cygb1 Knockout in Zebrafish Danio rerio,PRJNA970658,Other,Cytoglobin Cygb is an evolutionary ancient heme protein with yet unclear physiological functions. Cygb might be involved in ROS detoxification  NO metabolism and lipid based signaling processes. Mammalian Cygb is ubiquitously expressed in all tissues. We used a CRISPR/Cas9 genome editing approach and generated a knockout of the penta coordinated cygb1 for in vivo analysis in zebrafish. Adult cygb1 knockouts develop phenotypic anomalies  including neoplasia of gonads  and weight loss. To identify the molecular mechanisms underlying the occurrence of these phenotypes and differentiate between function and effect of the knockout we compared the transcriptomes of cygb1 knockouts at different ages to age matched wild type WT zebrafish.,,,,Old KO Brain 2,Cygb1KO G 2 S29 R1 001,,strain:Tuebingen|isolate:Brain 2 Cygb1KO|age:24 mpf|dev stage:adult|sex:male|tissue:brain|genotype:cygb1 knockout|BioSampleModel:Model organism or animal,,,,,,,,,RNAseq Zebrafish 24mpf Brain Cygb1KO,Cygb1KO G 2S29,Cygb1KO G 2S29,Total RNA was extracted using the Crystal RNA Mini Kit following the instructions of the manufacturer. RNA samples were treated with DNaseI Qiagen  according to the manufacturers protocol. RNA concentration and quality for Illumina sequencing was measured by employing the TapeStation System 2200. A library for paired end sequencing was generated from 1 g total RNA.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP436765,,,Cygb1KO-G-2_S29_R1_001.fastq.gz Cygb1KO-G-2_S29_R2_001.fastq.gz,fastq fastq,9228083087.0,31353095.0,Cygb1KO G 2 S29 R1 001.fastq.gz,0:146.81 1:147.51,A:2685482962;C:1925153227;G:1961258559;T:2654447279;N:1741060,146,147,,,2685482962,1925153227,1961258559,2654447279,1741060,SRX20274782,SRS17602473,SRA1634682,University of Hamburg|Institute of Animal Cell and Systems Biology (IZS),University of Hamburg,2,0.94076,0.94161,0.20564,0.20278,0.70498,0.70157,0.51187,0.51437,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Germany,2023-05-10,Adult,Adult,Brain,Nervous System
75371,SRR24489440,SRX20274780,SRS17602476,SRP436765,PRJNA970658,Transcriptome analysis of Cygb1 Knockout in Zebrafish Danio rerio,PRJNA970658,Other,Cytoglobin Cygb is an evolutionary ancient heme protein with yet unclear physiological functions. Cygb might be involved in ROS detoxification  NO metabolism and lipid based signaling processes. Mammalian Cygb is ubiquitously expressed in all tissues. We used a CRISPR/Cas9 genome editing approach and generated a knockout of the penta coordinated cygb1 for in vivo analysis in zebrafish. Adult cygb1 knockouts develop phenotypic anomalies  including neoplasia of gonads  and weight loss. To identify the molecular mechanisms underlying the occurrence of these phenotypes and differentiate between function and effect of the knockout we compared the transcriptomes of cygb1 knockouts at different ages to age matched wild type WT zebrafish.,,,,Old Brain 4,4 brainWTm R1 001,,strain:Tuebingen|isolate:Old Brain 4|age:24 mpf|dev stage:adult|sex:male|tissue:brain|genotype:wildtype|BioSampleModel:Model organism or animal,,,,,,,,,RNAseq Zebrafish 24mpf Brain WT,4 brainWTm,4 brainWTm,Total RNA was extracted using the Crystal RNA Mini Kit following the instructions of the manufacturer. RNA samples were treated with DNaseI Qiagen  according to the manufacturers protocol. RNA concentration and quality for Illumina sequencing was measured by employing the TapeStation System 2200. A library for paired end sequencing was generated from 1 g total RNA.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP436765,,,4-brainWTm_R1_001.fastq.gz 4-brainWTm_R2_001.fastq.gz,fastq fastq,5391512414.0,18695220.0,4 brainWTm R1 001.fastq.gz,0:143.36 1:145.03,A:1526986732;C:1144838870;G:1197115002;T:1511509189;N:11062621,143,145,,,1526986732,1144838870,1197115002,1511509189,11062621,SRX20274780,SRS17602476,SRA1634682,University of Hamburg|Institute of Animal Cell and Systems Biology (IZS),University of Hamburg,2,0.93479,0.93458,0.18008,0.17489,0.70652,0.70772,0.52976,0.52891,150,149,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Germany,2023-05-10,Adult,Adult,Brain,Nervous System
75373,SRR24489442,SRX20274778,SRS17602472,SRP436765,PRJNA970658,Transcriptome analysis of Cygb1 Knockout in Zebrafish Danio rerio,PRJNA970658,Other,Cytoglobin Cygb is an evolutionary ancient heme protein with yet unclear physiological functions. Cygb might be involved in ROS detoxification  NO metabolism and lipid based signaling processes. Mammalian Cygb is ubiquitously expressed in all tissues. We used a CRISPR/Cas9 genome editing approach and generated a knockout of the penta coordinated cygb1 for in vivo analysis in zebrafish. Adult cygb1 knockouts develop phenotypic anomalies  including neoplasia of gonads  and weight loss. To identify the molecular mechanisms underlying the occurrence of these phenotypes and differentiate between function and effect of the knockout we compared the transcriptomes of cygb1 knockouts at different ages to age matched wild type WT zebrafish.,,,,Old Brain 3,3 brainWTm R1 001,,strain:Tuebingen|isolate:Old Brain 3|age:24 mpf|dev stage:adult|sex:male|tissue:brain|genotype:wildtype|BioSampleModel:Model organism or animal,,,,,,,,,RNAseq Zebrafish 24mpf Brain WT,3 brainWTm,3 brainWTm,Total RNA was extracted using the Crystal RNA Mini Kit following the instructions of the manufacturer. RNA samples were treated with DNaseI Qiagen  according to the manufacturers protocol. RNA concentration and quality for Illumina sequencing was measured by employing the TapeStation System 2200. A library for paired end sequencing was generated from 1 g total RNA.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP436765,,,3-brainWTm_R1_001.fastq.gz 3-brainWTm_R2_001.fastq.gz,fastq fastq,7193574753.0,25032649.0,3 brainWTm R1 001.fastq.gz,0:143.01 1:144.35,A:2045307156;C:1525864162;G:1582858563;T:2027473626;N:12071246,143,144,,,2045307156,1525864162,1582858563,2027473626,12071246,SRX20274778,SRS17602472,SRA1634682,University of Hamburg|Institute of Animal Cell and Systems Biology (IZS),University of Hamburg,2,0.93262,0.93305,0.18864,0.18297,0.70522,0.70755,0.52309,0.50982,149,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Germany,2023-05-10,Adult,Adult,Brain,Nervous System
75375,SRR24489444,SRX20274776,SRS17602470,SRP436765,PRJNA970658,Transcriptome analysis of Cygb1 Knockout in Zebrafish Danio rerio,PRJNA970658,Other,Cytoglobin Cygb is an evolutionary ancient heme protein with yet unclear physiological functions. Cygb might be involved in ROS detoxification  NO metabolism and lipid based signaling processes. Mammalian Cygb is ubiquitously expressed in all tissues. We used a CRISPR/Cas9 genome editing approach and generated a knockout of the penta coordinated cygb1 for in vivo analysis in zebrafish. Adult cygb1 knockouts develop phenotypic anomalies  including neoplasia of gonads  and weight loss. To identify the molecular mechanisms underlying the occurrence of these phenotypes and differentiate between function and effect of the knockout we compared the transcriptomes of cygb1 knockouts at different ages to age matched wild type WT zebrafish.,,,,Old Brain 2,2 brainWTm R1 001,,strain:Tuebingen|isolate:Old Brain 2|age:24 mpf|dev stage:adult|sex:male|tissue:brain|genotype:wildtype|BioSampleModel:Model organism or animal,,,,,,,,,RNAseq Zebrafish 24mpf Brain WT,2 brainWTm,2 brainWTm,Total RNA was extracted using the Crystal RNA Mini Kit following the instructions of the manufacturer. RNA samples were treated with DNaseI Qiagen  according to the manufacturers protocol. RNA concentration and quality for Illumina sequencing was measured by employing the TapeStation System 2200. A library for paired end sequencing was generated from 1 g total RNA.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP436765,,,2-brainWTm_R1_001.fastq.gz 2-brainWTm_R2_001.fastq.gz,fastq fastq,6187362464.0,21465519.0,2 brainWTm R1 001.fastq.gz,0:143.41 1:144.83,A:1748094759;C:1321274648;G:1378525698;T:1728446529;N:11020830,143,144,,,1748094759,1321274648,1378525698,1728446529,11020830,SRX20274776,SRS17602470,SRA1634682,University of Hamburg|Institute of Animal Cell and Systems Biology (IZS),University of Hamburg,2,0.93634,0.93569,0.19002,0.18498,0.70583,0.70912,0.49674,0.50861,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Germany,2023-05-10,Adult,Adult,Brain,Nervous System
75377,SRR24489446,SRX20274774,SRS17602469,SRP436765,PRJNA970658,Transcriptome analysis of Cygb1 Knockout in Zebrafish Danio rerio,PRJNA970658,Other,Cytoglobin Cygb is an evolutionary ancient heme protein with yet unclear physiological functions. Cygb might be involved in ROS detoxification  NO metabolism and lipid based signaling processes. Mammalian Cygb is ubiquitously expressed in all tissues. We used a CRISPR/Cas9 genome editing approach and generated a knockout of the penta coordinated cygb1 for in vivo analysis in zebrafish. Adult cygb1 knockouts develop phenotypic anomalies  including neoplasia of gonads  and weight loss. To identify the molecular mechanisms underlying the occurrence of these phenotypes and differentiate between function and effect of the knockout we compared the transcriptomes of cygb1 knockouts at different ages to age matched wild type WT zebrafish.,,,,Old Brain 1,1 brainWTm R1 001,,strain:Tuebingen|isolate:Old Brain 1|age:24 mpf|dev stage:adult|sex:male|tissue:brain|genotype:wildtype|BioSampleModel:Model organism or animal,,,,,,,,,RNAseq Zebrafish 24mpf Brain WT,1 brainWTm,1 brainWTm,Total RNA was extracted using the Crystal RNA Mini Kit following the instructions of the manufacturer. RNA samples were treated with DNaseI Qiagen  according to the manufacturers protocol. RNA concentration and quality for Illumina sequencing was measured by employing the TapeStation System 2200. A library for paired end sequencing was generated from 1 g total RNA.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP436765,,,1-brainWTm_R1_001.fastq.gz 1-brainWTm_R2_001.fastq.gz,fastq fastq,6726100792.0,23362002.0,1 brainWTm R1 001.fastq.gz,0:143.27 1:144.64,A:1908300690;C:1425875188;G:1484609343;T:1896451119;N:10864452,143,144,,,1908300690,1425875188,1484609343,1896451119,10864452,SRX20274774,SRS17602469,SRA1634682,University of Hamburg|Institute of Animal Cell and Systems Biology (IZS),University of Hamburg,2,0.93315,0.93389,0.18871,0.18572,0.70763,0.70867,0.51666,0.51966,148,148,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Germany,2023-05-10,Adult,Adult,Brain,Nervous System
75380,SRR24489449,SRX20274771,SRS17602465,SRP436765,PRJNA970658,Transcriptome analysis of Cygb1 Knockout in Zebrafish Danio rerio,PRJNA970658,Other,Cytoglobin Cygb is an evolutionary ancient heme protein with yet unclear physiological functions. Cygb might be involved in ROS detoxification  NO metabolism and lipid based signaling processes. Mammalian Cygb is ubiquitously expressed in all tissues. We used a CRISPR/Cas9 genome editing approach and generated a knockout of the penta coordinated cygb1 for in vivo analysis in zebrafish. Adult cygb1 knockouts develop phenotypic anomalies  including neoplasia of gonads  and weight loss. To identify the molecular mechanisms underlying the occurrence of these phenotypes and differentiate between function and effect of the knockout we compared the transcriptomes of cygb1 knockouts at different ages to age matched wild type WT zebrafish.,,,,Adult KO brain F8,F8 KO brain N R1 001,,strain:Tuebingen|isolate:KO brain F8|age:12 mpf|dev stage:adult|sex:male|tissue:brain|genotype:cygb1 knockout|BioSampleModel:Model organism or animal,,,,,,,,,RNAseq Zebrafish 12mpf Brain Cygb1KO,F8 KO brain N,F8 KO brain N,Total RNA was extracted using the Crystal RNA Mini Kit following the instructions of the manufacturer. RNA samples were treated with DNaseI Qiagen  according to the manufacturers protocol. RNA concentration and quality for Illumina sequencing was measured by employing the TapeStation System 2200. A library for paired end sequencing was generated from 1 g total RNA.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP436765,,,F8-KO-brain-N_R1_001.fastq.gz F8-KO-brain-N_R2_001.fastq.gz,fastq fastq,6510417300.0,21701391.0,F8 KO brain N R1 001.fastq.gz,0:150 1:150,A:1728085662;C:1527176393;G:1597814846;T:1656898844;N:441555,150,150,,,1728085662,1527176393,1597814846,1656898844,441555,SRX20274771,SRS17602465,SRA1634682,University of Hamburg|Institute of Animal Cell and Systems Biology (IZS),University of Hamburg,2,0.93609,0.93632,0.11539,0.11374,0.69321,0.69818,0.50708,0.51603,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Germany,2023-05-10,Adult,Adult,Brain,Nervous System
75382,SRR24489451,SRX20274769,SRS17602474,SRP436765,PRJNA970658,Transcriptome analysis of Cygb1 Knockout in Zebrafish Danio rerio,PRJNA970658,Other,Cytoglobin Cygb is an evolutionary ancient heme protein with yet unclear physiological functions. Cygb might be involved in ROS detoxification  NO metabolism and lipid based signaling processes. Mammalian Cygb is ubiquitously expressed in all tissues. We used a CRISPR/Cas9 genome editing approach and generated a knockout of the penta coordinated cygb1 for in vivo analysis in zebrafish. Adult cygb1 knockouts develop phenotypic anomalies  including neoplasia of gonads  and weight loss. To identify the molecular mechanisms underlying the occurrence of these phenotypes and differentiate between function and effect of the knockout we compared the transcriptomes of cygb1 knockouts at different ages to age matched wild type WT zebrafish.,,,,Adult KO brain F4,F4 KO brain N R1 001,,strain:Tuebingen|isolate:KO brain F4|age:12 mpf|dev stage:adult|sex:male|tissue:brain|genotype:cygb1 knockout|BioSampleModel:Model organism or animal,,,,,,,,,RNAseq Zebrafish 12mpf Brain Cygb1KO,F4 KO brain N,F4 KO brain N,Total RNA was extracted using the Crystal RNA Mini Kit following the instructions of the manufacturer. RNA samples were treated with DNaseI Qiagen  according to the manufacturers protocol. RNA concentration and quality for Illumina sequencing was measured by employing the TapeStation System 2200. A library for paired end sequencing was generated from 1 g total RNA.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP436765,,,F4-KO-brain-N_R1_001.fastq.gz F4-KO-brain-N_R2_001.fastq.gz,fastq fastq,6297273000.0,20990910.0,F4 KO brain N R1 001.fastq.gz,0:150 1:150,A:1650938116;C:1498344277;G:1568940240;T:1578646981;N:403386,150,150,,,1650938116,1498344277,1568940240,1578646981,403386,SRX20274769,SRS17602474,SRA1634682,University of Hamburg|Institute of Animal Cell and Systems Biology (IZS),University of Hamburg,2,0.95268,0.95128,0.10086,0.09863,0.70396,0.70873,0.53685,0.54149,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Germany,2023-05-10,Adult,Adult,Brain,Nervous System
75384,SRR24489453,SRX20274767,SRS17602462,SRP436765,PRJNA970658,Transcriptome analysis of Cygb1 Knockout in Zebrafish Danio rerio,PRJNA970658,Other,Cytoglobin Cygb is an evolutionary ancient heme protein with yet unclear physiological functions. Cygb might be involved in ROS detoxification  NO metabolism and lipid based signaling processes. Mammalian Cygb is ubiquitously expressed in all tissues. We used a CRISPR/Cas9 genome editing approach and generated a knockout of the penta coordinated cygb1 for in vivo analysis in zebrafish. Adult cygb1 knockouts develop phenotypic anomalies  including neoplasia of gonads  and weight loss. To identify the molecular mechanisms underlying the occurrence of these phenotypes and differentiate between function and effect of the knockout we compared the transcriptomes of cygb1 knockouts at different ages to age matched wild type WT zebrafish.,,,,Adult KO brain F1,F1 KO brain N R1 001,,strain:Tuebingen|isolate:KO brain F1|age:12 mpf|dev stage:adult|sex:male|tissue:brain|genotype:cygb1 knockout|BioSampleModel:Model organism or animal,,,,,,,,,RNAseq Zebrafish 12mpf Brain Cygb1KO,F1 KO brain N,F1 KO brain N,Total RNA was extracted using the Crystal RNA Mini Kit following the instructions of the manufacturer. RNA samples were treated with DNaseI Qiagen  according to the manufacturers protocol. RNA concentration and quality for Illumina sequencing was measured by employing the TapeStation System 2200. A library for paired end sequencing was generated from 1 g total RNA.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP436765,,,F1-KO-brain-N_R1_001.fastq.gz F1-KO-brain-N_R2_001.fastq.gz,fastq fastq,6723614100.0,22412047.0,F1 KO brain N R1 001.fastq.gz,0:150 1:150,A:1794142191;C:1565642043;G:1634809983;T:1728587385;N:432498,150,150,,,1794142191,1565642043,1634809983,1728587385,432498,SRX20274767,SRS17602462,SRA1634682,University of Hamburg|Institute of Animal Cell and Systems Biology (IZS),University of Hamburg,2,0.94665,0.94595,0.1223,0.12114,0.68799,0.69315,0.51146,0.49845,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Germany,2023-05-10,Adult,Adult,Brain,Nervous System
75386,SRR24489455,SRX20274765,SRS17602459,SRP436765,PRJNA970658,Transcriptome analysis of Cygb1 Knockout in Zebrafish Danio rerio,PRJNA970658,Other,Cytoglobin Cygb is an evolutionary ancient heme protein with yet unclear physiological functions. Cygb might be involved in ROS detoxification  NO metabolism and lipid based signaling processes. Mammalian Cygb is ubiquitously expressed in all tissues. We used a CRISPR/Cas9 genome editing approach and generated a knockout of the penta coordinated cygb1 for in vivo analysis in zebrafish. Adult cygb1 knockouts develop phenotypic anomalies  including neoplasia of gonads  and weight loss. To identify the molecular mechanisms underlying the occurrence of these phenotypes and differentiate between function and effect of the knockout we compared the transcriptomes of cygb1 knockouts at different ages to age matched wild type WT zebrafish.,,,,Adult Brain F7,F7 WT brain N R1 001,,strain:Tuebingen|isolate:WT Brain F7|age:12 mpf|dev stage:adult|sex:male|tissue:brain|genotype:wildtype|BioSampleModel:Model organism or animal,,,,,,,,,RNAseq Zebrafish 12mpf Brain WT,F7 WT brain N,F7 WT brain N,Total RNA was extracted using the Crystal RNA Mini Kit following the instructions of the manufacturer. RNA samples were treated with DNaseI Qiagen  according to the manufacturers protocol. RNA concentration and quality for Illumina sequencing was measured by employing the TapeStation System 2200. A library for paired end sequencing was generated from 1 g total RNA.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP436765,,,F7-WT-brain-N_R1_001.fastq.gz F7-WT-brain-N_R2_001.fastq.gz,fastq fastq,6576419700.0,21921399.0,F7 WT brain N R1 001.fastq.gz,0:150 1:150,A:1752976243;C:1536177292;G:1602467003;T:1684351538;N:447624,150,150,,,1752976243,1536177292,1602467003,1684351538,447624,SRX20274765,SRS17602459,SRA1634682,University of Hamburg|Institute of Animal Cell and Systems Biology (IZS),University of Hamburg,2,0.93786,0.93818,0.12172,0.12012,0.68722,0.69158,0.51031,0.50836,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Germany,2023-05-10,Adult,Adult,Brain,Nervous System
75388,SRR24489457,SRX20274763,SRS17602458,SRP436765,PRJNA970658,Transcriptome analysis of Cygb1 Knockout in Zebrafish Danio rerio,PRJNA970658,Other,Cytoglobin Cygb is an evolutionary ancient heme protein with yet unclear physiological functions. Cygb might be involved in ROS detoxification  NO metabolism and lipid based signaling processes. Mammalian Cygb is ubiquitously expressed in all tissues. We used a CRISPR/Cas9 genome editing approach and generated a knockout of the penta coordinated cygb1 for in vivo analysis in zebrafish. Adult cygb1 knockouts develop phenotypic anomalies  including neoplasia of gonads  and weight loss. To identify the molecular mechanisms underlying the occurrence of these phenotypes and differentiate between function and effect of the knockout we compared the transcriptomes of cygb1 knockouts at different ages to age matched wild type WT zebrafish.,,,,Adult Brain F6,F6 WT brain N R1 001,,strain:Tuebingen|isolate:WT Brain F6|age:12 mpf|dev stage:adult|sex:male|tissue:brain|genotype:wildtype|BioSampleModel:Model organism or animal,,,,,,,,,RNAseq Zebrafish 12mpf Brain WT,F6 WT brain N,F6 WT brain N,Total RNA was extracted using the Crystal RNA Mini Kit following the instructions of the manufacturer. RNA samples were treated with DNaseI Qiagen  according to the manufacturers protocol. RNA concentration and quality for Illumina sequencing was measured by employing the TapeStation System 2200. A library for paired end sequencing was generated from 1 g total RNA.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina HiSeq 4000,,SRP436765,,,F6-WT-brain-N_R1_001.fastq.gz F6-WT-brain-N_R2_001.fastq.gz,fastq fastq,5529906000.0,18433020.0,F6 WT brain N R1 001.fastq.gz,0:150 1:150,A:1484087685;C:1276380609;G:1344707858;T:1424369191;N:360657,150,150,,,1484087685,1276380609,1344707858,1424369191,360657,SRX20274763,SRS17602458,SRA1634682,University of Hamburg|Institute of Animal Cell and Systems Biology (IZS),University of Hamburg,2,0.92807,0.92821,0.12062,0.11965,0.69126,0.69702,0.50832,0.51172,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,Germany,2023-05-10,Adult,Adult,Brain,Nervous System