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38 rows where experiment.library_selection = "RANDOM", technology = "unknown" and tissue_curation_coarse = "Liver and Biliary System"

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experiment.platform 2

tissue_curation_coarse 1

  • Liver and Biliary System · 38 ✖

tissue_curation 1

technology 1

  • unknown · 38 ✖

experiment.library_strategy 1

experiment.library_source 1

experiment.library_selection 1

  • RANDOM · 38 ✖

experiment.library_layout 1

devstage_curation_coarse 1

devstage_curation 1

Link rowid ▼ run.accession experiment.accession sample.accession study.accession bioproject study.title study.alias study.type study.abstract study.attributes study.PMIDs sample.description sample.title sample.alias sample.centername sample.attributes GEOsample.title GEOsample.dataprocessing GEOsample.source GEOsample.treatmentprotocol GEOsample.extractprotocol GEOsample.growthprotocol GEOsample.characteristics GEOsample.accession experiment.title experiment.alias experiment.library_name experiment.design_description experiment.library_construction_protocol experiment.attributes experiment.library_strategy experiment.library_source experiment.library_selection experiment.library_layout experiment.platform experiment.instrument_model experiment.spot_descriptor experiment.study_ref run.title run.attributes run.filename run.semantic_name run.total_bases run.total_spots run.alias run.read_lengths run.base_counts run.r1_length run.r2_length run.r3_length run.r4_length run.Acount run.Ccount run.Gcount run.Tcount run.Ncount run.experiment run.pool_member submission.accession submission.srasource submission.bioprojectsource seqdetective.n_mates seqdetective.mapping_rate.mate1 seqdetective.mapping_rate.mate2 seqdetective.nofeature_rate.mate1 seqdetective.nofeature_rate.mate2 seqdetective.sparsity.mate1 seqdetective.sparsity.mate2 seqdetective.pos_strand_rate.mate1 seqdetective.pos_strand_rate.mate2 seqdetective.readlen.mate1 seqdetective.readlen.mate2 seqdetective.judgement.mate1 seqdetective.judgement.mate2 seqdetective.judgement.reason platform_family instrument_generation read_bias selection_class prep_kit sc_or_bulk tech_class technology tech_variant submission.bioprojectsource.country earliest_date devstage_curation devstage_curation_coarse tissue_curation tissue_curation_coarse
36236 36236 SRR33613689 SRX28842041 SRS25072235 SRP586122 PRJNA1264536 Transcriptomic analysis of zebrafish liver reveals effects of ehd3 knockout on fatty acid metabolism PRJNA1264536 Other This study aims to investigate the impact of ehd3 gene knockout on liver transcriptome profiles and fatty acid metabolism in zebrafish Danio rerio. By comparing the transcriptomic differences between ehd3 Homozygous mutants and wild type controls we sought to identify differentially expressed genes and pathways involved in lipid synthesis elongation and desaturation. The findings will enhance our understanding of the regulatory role of EHD3 in hepatic fatty acid homeostasis and provide insights into the genetic mechanisms underlying lipid metabolism. This research is relevant to both fundamental studies in metabolic biology and potential applications in improving fish nutritional quality and understanding lipid related disorders.         ea 6   strain:Not collected|isolate:aa 4|breed:Artemia|cultivar:Not collected|ecotype:Not collected|age:4 mpf|dev stage:Adult fish|collection date:2025 01 03|geo loc name:China:Xiamen|sex:male|tissue:liver|danio rerio zebrafish:Danio rerio zebrafishcellular organisms; Eukaryota; Opisthokonta; Metazoa; Eumetazoa; Bilateria; Deuterostomia; Chordata; Craniata; Vertebrata; Gnathostomata; Teleostomi; Euteleostomi; Actinopterygii; Actinopteri; Neopterygii; Teleostei; Osteoglossocephalai; Clupeocephala; Otomorpha; Ostariophysi; Otophysi; Cypriniphysae; Cypriniformes; Cyprinoidei; Danionidae; Danioninae; Danio|BioSampleModel:Model organism or animal                 liver RNA seq ea 6 ea 6 Transcriptome data from two groups of gene knockouts in zebrafish     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED ILLUMINA Illumina HiSeq 4000   SRP586122     L1HJB2100087-e13_a4.R1.raw.fastq.gz L1HJB2100087-e13_a4.R2.raw.fastq.gz fastq fastq 4387314664.0 14527532.0 L1HJB2100087 e13 a4.R1.raw.fastq.gz 0:151 1:151 A:1181219785;C:999854316;G:1021151141;T:1185029538;N:59884 151 151     1181219785 999854316 1021151141 1185029538 59884 SRX28842041 SRS25072235 SRA2131923 Jimei University|Fisheries College Jimei University                       B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2025-05-18 Adult Adult Liver Liver and Biliary System
36237 36237 SRR33613690 SRX28842040 SRS25072236 SRP586122 PRJNA1264536 Transcriptomic analysis of zebrafish liver reveals effects of ehd3 knockout on fatty acid metabolism PRJNA1264536 Other This study aims to investigate the impact of ehd3 gene knockout on liver transcriptome profiles and fatty acid metabolism in zebrafish Danio rerio. By comparing the transcriptomic differences between ehd3 Homozygous mutants and wild type controls we sought to identify differentially expressed genes and pathways involved in lipid synthesis elongation and desaturation. The findings will enhance our understanding of the regulatory role of EHD3 in hepatic fatty acid homeostasis and provide insights into the genetic mechanisms underlying lipid metabolism. This research is relevant to both fundamental studies in metabolic biology and potential applications in improving fish nutritional quality and understanding lipid related disorders.         ea 5   strain:Not collected|isolate:aa 3|breed:Artemia|cultivar:Not collected|ecotype:Not collected|age:4 mpf|dev stage:Adult fish|collection date:2025 01 03|geo loc name:China:Xiamen|sex:male|tissue:liver|danio rerio zebrafish:Danio rerio zebrafishcellular organisms; Eukaryota; Opisthokonta; Metazoa; Eumetazoa; Bilateria; Deuterostomia; Chordata; Craniata; Vertebrata; Gnathostomata; Teleostomi; Euteleostomi; Actinopterygii; Actinopteri; Neopterygii; Teleostei; Osteoglossocephalai; Clupeocephala; Otomorpha; Ostariophysi; Otophysi; Cypriniphysae; Cypriniformes; Cyprinoidei; Danionidae; Danioninae; Danio|BioSampleModel:Model organism or animal                 liver RNA seq ea 5 ea 5 Transcriptome data from two groups of gene knockouts in zebrafish     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED ILLUMINA Illumina HiSeq 4000   SRP586122     L1HJB2100086-e13_a3.R1.raw.fastq.gz L1HJB2100086-e13_a3.R2.raw.fastq.gz fastq fastq 4718170160.0 15623080.0 L1HJB2100086 e13 a3.R1.raw.fastq.gz 0:151 1:151 A:1297970572;C:1052292935;G:1069086913;T:1298756019;N:63721 151 151     1297970572 1052292935 1069086913 1298756019 63721 SRX28842040 SRS25072236 SRA2131923 Jimei University|Fisheries College Jimei University                       B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2025-05-18 Adult Adult Liver Liver and Biliary System
36238 36238 SRR33613691 SRX28842039 SRS25072234 SRP586122 PRJNA1264536 Transcriptomic analysis of zebrafish liver reveals effects of ehd3 knockout on fatty acid metabolism PRJNA1264536 Other This study aims to investigate the impact of ehd3 gene knockout on liver transcriptome profiles and fatty acid metabolism in zebrafish Danio rerio. By comparing the transcriptomic differences between ehd3 Homozygous mutants and wild type controls we sought to identify differentially expressed genes and pathways involved in lipid synthesis elongation and desaturation. The findings will enhance our understanding of the regulatory role of EHD3 in hepatic fatty acid homeostasis and provide insights into the genetic mechanisms underlying lipid metabolism. This research is relevant to both fundamental studies in metabolic biology and potential applications in improving fish nutritional quality and understanding lipid related disorders.         ea 4   strain:Not collected|isolate:aa 2|breed:Artemia|cultivar:Not collected|ecotype:Not collected|age:4 mpf|dev stage:Adult fish|collection date:2025 01 03|geo loc name:China:Xiamen|sex:male|tissue:liver|danio rerio zebrafish:Danio rerio zebrafishcellular organisms; Eukaryota; Opisthokonta; Metazoa; Eumetazoa; Bilateria; Deuterostomia; Chordata; Craniata; Vertebrata; Gnathostomata; Teleostomi; Euteleostomi; Actinopterygii; Actinopteri; Neopterygii; Teleostei; Osteoglossocephalai; Clupeocephala; Otomorpha; Ostariophysi; Otophysi; Cypriniphysae; Cypriniformes; Cyprinoidei; Danionidae; Danioninae; Danio|BioSampleModel:Model organism or animal                 liver RNA seq ea 4 ea 4 Transcriptome data from two groups of gene knockouts in zebrafish     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED ILLUMINA Illumina HiSeq 4000   SRP586122     L1HJB2100085-e13_a2.R1.raw.fastq.gz L1HJB2100085-e13_a2.R2.raw.fastq.gz fastq fastq 4102870528.0 13585664.0 L1HJB2100085 e13 a2.R1.raw.fastq.gz 0:151 1:151 A:1108518064;C:932530532;G:950570756;T:1111194555;N:56621 151 151     1108518064 932530532 950570756 1111194555 56621 SRX28842039 SRS25072234 SRA2131923 Jimei University|Fisheries College Jimei University                       B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2025-05-18 Adult Adult Liver Liver and Biliary System
36239 36239 SRR33613692 SRX28842038 SRS25072233 SRP586122 PRJNA1264536 Transcriptomic analysis of zebrafish liver reveals effects of ehd3 knockout on fatty acid metabolism PRJNA1264536 Other This study aims to investigate the impact of ehd3 gene knockout on liver transcriptome profiles and fatty acid metabolism in zebrafish Danio rerio. By comparing the transcriptomic differences between ehd3 Homozygous mutants and wild type controls we sought to identify differentially expressed genes and pathways involved in lipid synthesis elongation and desaturation. The findings will enhance our understanding of the regulatory role of EHD3 in hepatic fatty acid homeostasis and provide insights into the genetic mechanisms underlying lipid metabolism. This research is relevant to both fundamental studies in metabolic biology and potential applications in improving fish nutritional quality and understanding lipid related disorders.         eA 3   strain:Not collected|isolate:AA 4|breed:Artemia|cultivar:Not collected|ecotype:Not collected|age:4 mpf|dev stage:Adult fish|collection date:2025 01 03|geo loc name:China:Xiamen|sex:male|tissue:liver|danio rerio zebrafish:Danio rerio zebrafishcellular organisms; Eukaryota; Opisthokonta; Metazoa; Eumetazoa; Bilateria; Deuterostomia; Chordata; Craniata; Vertebrata; Gnathostomata; Teleostomi; Euteleostomi; Actinopterygii; Actinopteri; Neopterygii; Teleostei; Osteoglossocephalai; Clupeocephala; Otomorpha; Ostariophysi; Otophysi; Cypriniphysae; Cypriniformes; Cyprinoidei; Danionidae; Danioninae; Danio|BioSampleModel:Model organism or animal                 liver RNA seq eA 3 eA 3 Transcriptome data from two groups of gene knockouts in zebrafish     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED ILLUMINA Illumina HiSeq 4000   SRP586122     L1HJB2100083-e13_AA4.R1.raw.fastq.gz L1HJB2100083-e13_AA4.R2.raw.fastq.gz fastq fastq 4149242628.0 13739214.0 L1HJB2100083 e13 AA4.R1.raw.fastq.gz 0:151 1:151 A:1147822173;C:922103806;G:936893354;T:1142368362;N:54933 151 151     1147822173 922103806 936893354 1142368362 54933 SRX28842038 SRS25072233 SRA2131923 Jimei University|Fisheries College Jimei University                       B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2025-05-18 Adult Adult Liver Liver and Biliary System
36240 36240 SRR33613693 SRX28842037 SRS25072232 SRP586122 PRJNA1264536 Transcriptomic analysis of zebrafish liver reveals effects of ehd3 knockout on fatty acid metabolism PRJNA1264536 Other This study aims to investigate the impact of ehd3 gene knockout on liver transcriptome profiles and fatty acid metabolism in zebrafish Danio rerio. By comparing the transcriptomic differences between ehd3 Homozygous mutants and wild type controls we sought to identify differentially expressed genes and pathways involved in lipid synthesis elongation and desaturation. The findings will enhance our understanding of the regulatory role of EHD3 in hepatic fatty acid homeostasis and provide insights into the genetic mechanisms underlying lipid metabolism. This research is relevant to both fundamental studies in metabolic biology and potential applications in improving fish nutritional quality and understanding lipid related disorders.         eA 2   strain:Not collected|isolate:AA 3|breed:Artemia|cultivar:Not collected|ecotype:Not collected|age:4 mpf|dev stage:Adult fish|collection date:2025 01 03|geo loc name:China:Xiamen|sex:male|tissue:liver|danio rerio zebrafish:Danio rerio zebrafishcellular organisms; Eukaryota; Opisthokonta; Metazoa; Eumetazoa; Bilateria; Deuterostomia; Chordata; Craniata; Vertebrata; Gnathostomata; Teleostomi; Euteleostomi; Actinopterygii; Actinopteri; Neopterygii; Teleostei; Osteoglossocephalai; Clupeocephala; Otomorpha; Ostariophysi; Otophysi; Cypriniphysae; Cypriniformes; Cyprinoidei; Danionidae; Danioninae; Danio|BioSampleModel:Model organism or animal                 liver RNA seq eA 2 eA 2 Transcriptome data from two groups of gene knockouts in zebrafish     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED ILLUMINA Illumina HiSeq 4000   SRP586122     L1HJB2100082-e13_AA3.R1.raw.fastq.gz L1HJB2100082-e13_AA3.R2.raw.fastq.gz fastq fastq 4322107126.0 14311613.0 L1HJB2100082 e13 AA3.R1.raw.fastq.gz 0:151 1:151 A:1174477372;C:977793303;G:994707829;T:1175046923;N:81699 151 151     1174477372 977793303 994707829 1175046923 81699 SRX28842037 SRS25072232 SRA2131923 Jimei University|Fisheries College Jimei University                       B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2025-05-18 Adult Adult Liver Liver and Biliary System
36241 36241 SRR33613694 SRX28842036 SRS25072231 SRP586122 PRJNA1264536 Transcriptomic analysis of zebrafish liver reveals effects of ehd3 knockout on fatty acid metabolism PRJNA1264536 Other This study aims to investigate the impact of ehd3 gene knockout on liver transcriptome profiles and fatty acid metabolism in zebrafish Danio rerio. By comparing the transcriptomic differences between ehd3 Homozygous mutants and wild type controls we sought to identify differentially expressed genes and pathways involved in lipid synthesis elongation and desaturation. The findings will enhance our understanding of the regulatory role of EHD3 in hepatic fatty acid homeostasis and provide insights into the genetic mechanisms underlying lipid metabolism. This research is relevant to both fundamental studies in metabolic biology and potential applications in improving fish nutritional quality and understanding lipid related disorders.         eA 1   strain:Not collected|isolate:AA 2|breed:Artemia|cultivar:Not collected|ecotype:Not collected|age:4 mpf|dev stage:Adult fish|collection date:2025 01 03|geo loc name:China:Xiamen|sex:male|tissue:liver|danio rerio zebrafish:cellular organisms; Eukaryota; Opisthokonta; Metazoa; Eumetazoa; Bilateria; Deuterostomia; Chordata; Craniata; Vertebrata; Gnathostomata; Teleostomi; Euteleostomi; Actinopterygii; Actinopteri; Neopterygii; Teleostei; Osteoglossocephalai; Clupeocephala; Otomorpha; Ostariophysi; Otophysi; Cypriniphysae; Cypriniformes; Cyprinoidei; Danionidae; Danioninae; Danio|BioSampleModel:Model organism or animal                 liver RNA seq eA 1 eA 1 Transcriptome data from two groups of gene knockouts in zebrafish     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED ILLUMINA Illumina HiSeq 4000   SRP586122     L1HJB2100081-e13_AA2.R1.raw.fastq.gz L1HJB2100081-e13_AA2.R2.raw.fastq.gz fastq fastq 4345265392.0 14388296.0 L1HJB2100081 e13 AA2.R1.raw.fastq.gz 0:151 1:151 A:1198935259;C:966182053;G:982645751;T:1197420171;N:82158 151 151     1198935259 966182053 982645751 1197420171 82158 SRX28842036 SRS25072231 SRA2131923 Jimei University|Fisheries College Jimei University                       B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2025-05-18 Adult Adult Liver Liver and Biliary System
37106 37106 SRR891504 SRX298189 SRS673879 SRP024369 PRJNA207719 Tissue specific transcriptome profiling of zebrafish PRJNA207719 Other Tissue specific transcriptome profiling of zebrafish.         Danio rerio liver   sex:missing|strain:wild type|tissue:liver|health state:normal|collection date:2013|geo loc name:India|biomaterial provider:CSIR Institute of Genomics and Integrative Biology|age:adult|BioSampleModel:Model organism or animal                 Tissue specific transcriptome of zebrafish Transcriptome of zebrafish Danio rerio liver Zebrafish Liver 1     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED ILLUMINA Illumina Genome Analyzer IIx <SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><SPOT_LENGTH>102</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><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Reverse</READ_TYPE><BASE_COORD>52</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR> SRP024369     lane2_NoIndex_L002_R1_cat.fastq lane2_NoIndex_L002_R2_cat.fastq fastq fastq 2901183144.0 28442972.0 Transcriptome of zebrafish Danio rerio Liver 0:51 1:51 A:728201287;C:715925650;G:737506674;T:719033716;N:515817 51 51     728201287 715925650 737506674 719033716 515817 SRX298189 SRS673879 SRA089174 CSIR-IGIB CSIR-Institute of Genomics and Integrative Biology CSIR-Institute of Genomics and Integrative Biology 2 0.87667 0.87728 0.03607 0.03788 0.89351 0.89471 0.16094 0.15975 51 51 B B biological fallback assumption illumina early_illumina unknown random_priming unknown bulk unknown unknown   India 2013-10-10 Adult Adult Liver Liver and Biliary System
45025 45025 SRR6417970 SRX3511000 SRS2788365 SRP127527 PRJNA427439 zebrafish Raw sequence reads PRJNA427439 Whole Genome Sequencing difference of zebrafish liver transcription under cold stress of three treatments         F   isolate:liver sample|breed:zebrafish|cultivar:not applicable|ecotype:missing|age:4 month|dev stage:not collected|sex:female|tissue:liver|collection date:2016 10|treatment:Fasting fish at normal temperature|BioSampleModel:Model organism or animal                 fasting F F liver RNA     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED ILLUMINA Illumina HiSeq 4000   SRP127527     S1_R1_001.fastq.gz S1_R2_001.fastq.gz fastq fastq 8683570500.0 28945235.0 S1 R1 001.fastq.gz 0:150 1:150 A:2262195723;C:2058843424;G:2088994445;T:2272795057;N:741851 150 150     2262195723 2058843424 2088994445 2272795057 741851 SRX3511000 SRS2788365 SRA641706 East China Normal University|LANEH East China Normal University 2 0.94494 0.87889 0.02559 0.02221 0.84167 0.85654 0.31534 0.30463 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2019-01-01 Adult Adult Liver Liver and Biliary System
45026 45026 SRR6417971 SRX3510999 SRS2788364 SRP127527 PRJNA427439 zebrafish Raw sequence reads PRJNA427439 Whole Genome Sequencing difference of zebrafish liver transcription under cold stress of three treatments         CC   isolate:liver sample|breed:zebrafish|cultivar:not applicable|ecotype:missing|age:4 month|dev stage:not collected|sex:female|tissue:liver|collection date:2016 10|treatment:fed fish at low temperature|BioSampleModel:Model organism or animal                 control cold CC CC liver RNA     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED ILLUMINA Illumina HiSeq 4000   SRP127527     CL1_R2_001.fastq.gz CL1_R1_001.fastq.gz fastq fastq 8768628300.0 29228761.0 CL1 R1 001.fastq.gz 0:150 1:150 A:2263071387;C:2102399156;G:2127001585;T:2275399627;N:756545 150 150     2263071387 2102399156 2127001585 2275399627 756545 SRX3510999 SRS2788364 SRA641706 East China Normal University|LANEH East China Normal University 2 0.94898 0.89631 0.0195 0.01734 0.84039 0.85486 0.31047 0.29991 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2019-01-01 Adult Adult Liver Liver and Biliary System
45027 45027 SRR6417972 SRX3510998 SRS2788363 SRP127527 PRJNA427439 zebrafish Raw sequence reads PRJNA427439 Whole Genome Sequencing difference of zebrafish liver transcription under cold stress of three treatments         C   isolate:liver sample|breed:zebrafish|cultivar:not applicable|ecotype:missing|age:4 month|dev stage:not collected|sex:female|tissue:liver|collection date:2016 10|treatment:fed fish at normal temperature|BioSampleModel:Model organism or animal                 control C C liver RNA     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED ILLUMINA Illumina HiSeq 4000   SRP127527     C1_R1_001.fastq.gz C1_R2_001.fastq.gz fastq fastq 9977398500.0 33257995.0 C1 R2 001.fastq.gz 0:150 1:150 A:2606380774;C:2356617786;G:2384474904;T:2629078399;N:846637 150 150     2606380774 2356617786 2384474904 2629078399 846637 SRX3510998 SRS2788363 SRA641706 East China Normal University|LANEH East China Normal University 2 0.94007 0.88261 0.02969 0.02579 0.81387 0.82931 0.36785 0.35841 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2019-01-01 Adult Adult Liver Liver and Biliary System
45028 45028 SRR6417973 SRX3510997 SRS2788362 SRP127527 PRJNA427439 zebrafish Raw sequence reads PRJNA427439 Whole Genome Sequencing difference of zebrafish liver transcription under cold stress of three treatments         R   isolate:liver sample|breed:zebrafish|cultivar:not applicable|ecotype:missing|age:4 month|dev stage:not collected|sex:female|tissue:liver|collection date:2016 10|treatment:fish fed with RAPA at normal temperature|BioSampleModel:Model organism or animal                 rapamycin R R liver RNA     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED ILLUMINA Illumina HiSeq 4000   SRP127527     R1_R1_001.fastq.gz R1_R2_001.fastq.gz fastq fastq 11095784700.0 36985949.0 R1 R1 001.fastq.gz 0:150 1:150 A:2882654794;C:2647660243;G:2683931308;T:2880616906;N:921449 150 150     2882654794 2647660243 2683931308 2880616906 921449 SRX3510997 SRS2788362 SRA641706 East China Normal University|LANEH East China Normal University 2 0.94891 0.89723 0.01958 0.01666 0.83652 0.85086 0.37967 0.37725 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2019-01-01 Adult Adult Liver Liver and Biliary System
45029 45029 SRR6417974 SRX3510996 SRS2788361 SRP127527 PRJNA427439 zebrafish Raw sequence reads PRJNA427439 Whole Genome Sequencing difference of zebrafish liver transcription under cold stress of three treatments         RC   isolate:liver sample|breed:zebrafish|cultivar:not applicable|ecotype:missing|age:4 month|dev stage:not collected|sex:female|tissue:liver|collection date:2016 10|treatment:fish fed with RAPA at low temperature|BioSampleModel:Model organism or animal                 rapamycin cold RC RC liver RNA     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED ILLUMINA Illumina HiSeq 4000   SRP127527     RL1_R1_001.fastq.gz RL1_R2_001.fastq.gz fastq fastq 8556927600.0 28523092.0 RL1 R2 001.fastq.gz 0:150 1:150 A:2218480468;C:2034236949;G:2074373957;T:2229124142;N:712084 150 150     2218480468 2034236949 2074373957 2229124142 712084 SRX3510996 SRS2788361 SRA641706 East China Normal University|LANEH East China Normal University 2 0.95271 0.90274 0.01902 0.01692 0.85721 0.87308 0.29004 0.27111 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2019-01-01 Adult Adult Liver Liver and Biliary System
45030 45030 SRR6417975 SRX3510995 SRS2788360 SRP127527 PRJNA427439 zebrafish Raw sequence reads PRJNA427439 Whole Genome Sequencing difference of zebrafish liver transcription under cold stress of three treatments         FC   isolate:liver sample|breed:zebrafish|cultivar:not applicable|ecotype:missing|age:4 month|dev stage:not collected|sex:female|tissue:liver|collection date:2016 10|treatment:fasting fish at low temperature|BioSampleModel:Model organism or animal                 fasting cold FC FC liver RNA     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED ILLUMINA Illumina HiSeq 4000   SRP127527     SL1_R2_001.fastq.gz SL1_R1_001.fastq.gz fastq fastq 8425906500.0 28086355.0 SL1 R1 001.fastq.gz 0:150 1:150 A:2198800566;C:1989895790;G:2017764820;T:2218716492;N:728832 150 150     2198800566 1989895790 2017764820 2218716492 728832 SRX3510995 SRS2788360 SRA641706 East China Normal University|LANEH East China Normal University 2 0.94066 0.88199 0.02227 0.01939 0.87825 0.89138 0.20322 0.19415 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2017-12-25 Adult Adult Liver Liver and Biliary System
56012 56012 SRR10895920 SRX7564559 SRS6001795 SRP241982 PRJNA599026 Project of basal ray finned fishes PRJNA599026 Other The project is to study the oldest fish lineages in the ray finned fishes. Although they belong to fish their body structure and behavior remain highly similar to that of the tetrapods. Through comparative genome analysis with living vertebrates we provides insights into the molecular basis of terrestrial adaptation of basal ray finned fishes.   pubmed:33545088;pubmed:12470943     Zebrafish 001   strain:not collected|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:not collected|dev stage:Adult|sex:not determined|tissue:Liver|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio : adult CL100103858 L01 5 CL100103858 L01 5       RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED BGISEQ BGISEQ-500   SRP241982     CL100103858_L01_506_2.fq.gz CL100103858_L01_506_1.fq.gz fastq fastq 8894951400.0 88949514.0 CL100103858 L01 506 1.fq.gz 0:100 1:100 A:2342120919;C:2080816976;G:2120799988;T:2335970174;N:15243343 100 100     2342120919 2080816976 2120799988 2335970174 15243343 SRX7564559 SRS6001795 SRA1026516 BGI|BGI-Research BGI 1 0.9583   0.02358   0.88609   0.21491   100   B   usable mapping rate bgi bgi unknown random_priming unknown bulk unknown unknown   China 2020-01-15 Adult Adult Liver Liver and Biliary System
56013 56013 SRR10895921 SRX7564558 SRS6001795 SRP241982 PRJNA599026 Project of basal ray finned fishes PRJNA599026 Other The project is to study the oldest fish lineages in the ray finned fishes. Although they belong to fish their body structure and behavior remain highly similar to that of the tetrapods. Through comparative genome analysis with living vertebrates we provides insights into the molecular basis of terrestrial adaptation of basal ray finned fishes.   pubmed:33545088;pubmed:12470943     Zebrafish 001   strain:not collected|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:not collected|dev stage:Adult|sex:not determined|tissue:Liver|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio : adult CL100103858 L01 4 CL100103858 L01 4       RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED BGISEQ BGISEQ-500   SRP241982     CL100103858_L01_502_1.fq.gz CL100103858_L01_502_2.fq.gz fastq fastq 9016276200.0 90162762.0 CL100103858 L01 502 1.fq.gz 0:100 1:100 A:2351547777;C:2123700654;G:2170958690;T:2354500550;N:15568529 100 100     2351547777 2123700654 2170958690 2354500550 15568529 SRX7564558 SRS6001795 SRA1026516 BGI|BGI-Research BGI 1 0.951   0.0278   0.84476   0.28629   100   B   usable mapping rate bgi bgi unknown random_priming unknown bulk unknown unknown   China 2020-01-15 Adult Adult Liver Liver and Biliary System
56014 56014 SRR10895922 SRX7564557 SRS6001795 SRP241982 PRJNA599026 Project of basal ray finned fishes PRJNA599026 Other The project is to study the oldest fish lineages in the ray finned fishes. Although they belong to fish their body structure and behavior remain highly similar to that of the tetrapods. Through comparative genome analysis with living vertebrates we provides insights into the molecular basis of terrestrial adaptation of basal ray finned fishes.   pubmed:33545088;pubmed:12470943     Zebrafish 001   strain:not collected|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:not collected|dev stage:Adult|sex:not determined|tissue:Liver|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio : adult CL100103858 L01 3 CL100103858 L01 3       RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED BGISEQ BGISEQ-500   SRP241982     CL100103858_L01_504_2.fq.gz CL100103858_L01_504_1.fq.gz fastq fastq 8533635000.0 85336350.0 CL100103858 L01 504 1.fq.gz 0:100 1:100 A:2252394702;C:1967888849;G:2019361190;T:2279066552;N:14923707 100 100     2252394702 1967888849 2019361190 2279066552 14923707 SRX7564557 SRS6001795 SRA1026516 BGI|BGI-Research BGI 1 0.94212   0.04536   0.80099   0.49769   100   B   usable mapping rate bgi bgi unknown random_priming unknown bulk unknown unknown   China 2020-01-15 Adult Adult Liver Liver and Biliary System
56015 56015 SRR10895923 SRX7564556 SRS6001795 SRP241982 PRJNA599026 Project of basal ray finned fishes PRJNA599026 Other The project is to study the oldest fish lineages in the ray finned fishes. Although they belong to fish their body structure and behavior remain highly similar to that of the tetrapods. Through comparative genome analysis with living vertebrates we provides insights into the molecular basis of terrestrial adaptation of basal ray finned fishes.   pubmed:33545088;pubmed:12470943     Zebrafish 001   strain:not collected|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:not collected|dev stage:Adult|sex:not determined|tissue:Liver|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio : adult CL100103858 L01 2 CL100103858 L01 2       RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED BGISEQ BGISEQ-500   SRP241982     CL100103858_L01_503_1.fq.gz CL100103858_L01_503_2.fq.gz fastq fastq 9344789800.0 93447898.0 CL100103858 L01 503 1.fq.gz 0:100 1:100 A:2456933695;C:2188901617;G:2230043511;T:2452921108;N:15989869 100 100     2456933695 2188901617 2230043511 2452921108 15989869 SRX7564556 SRS6001795 SRA1026516 BGI|BGI-Research BGI 1 0.95239   0.01872   0.88026   0.24265   100   B   usable mapping rate bgi bgi unknown random_priming unknown bulk unknown unknown   China 2020-01-15 Adult Adult Liver Liver and Biliary System
56016 56016 SRR10895925 SRX7564554 SRS6001795 SRP241982 PRJNA599026 Project of basal ray finned fishes PRJNA599026 Other The project is to study the oldest fish lineages in the ray finned fishes. Although they belong to fish their body structure and behavior remain highly similar to that of the tetrapods. Through comparative genome analysis with living vertebrates we provides insights into the molecular basis of terrestrial adaptation of basal ray finned fishes.   pubmed:33545088;pubmed:12470943     Zebrafish 001   strain:not collected|isolate:not collected|breed:not collected|cultivar:not collected|ecotype:not collected|age:not collected|dev stage:Adult|sex:not determined|tissue:Liver|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio : adult CL100103858 L01 CL100103858 L01       RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED BGISEQ BGISEQ-500   SRP241982     CL100103858_L01_501_1.fq.gz CL100103858_L01_501_2.fq.gz fastq fastq 8939441800.0 89394418.0 CL100103858 L01 501 1.fq.gz 0:100 1:100 A:2371368780;C:2076807210;G:2121148823;T:2354885910;N:15231077 100 100     2371368780 2076807210 2121148823 2354885910 15231077 SRX7564554 SRS6001795 SRA1026516 BGI|BGI-Research BGI 1 0.94776   0.01842   0.88822   0.16376   100   B   usable mapping rate bgi bgi unknown random_priming unknown bulk unknown unknown   China 2020-01-15 Adult Adult Liver Liver and Biliary System
58565 58565 SRR11411804 SRX7990456 SRS6374486 SRP253956 PRJNA615045 Strategy of Hepatic Metabolic Defects Induced by beclin1 Heterozygosity in Adult Zebrafish PRJNA615045 Other In our study mutant zebrafish lines of autophagy related genes beclin1 were generated by CRISPR/Cas9 gene editing technology.Interestingly male beclin1 heterozygous zebrafish displayed liver defects in the morphology and histology including abnormal hepatocyte proliferation hemorrhagic and inflammatory phenotypes. In order to better study the phenotype of beclin1 heterozygous zebrafish we extracted RNA from the liver of 12 mpf male beclin1 heterozygous and WT for transcriptomics research.         zebrafish   strain:missing|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:12months|dev stage:sex mature|sex:male|tissue:liver|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: adult male liver beclin1 heterozygous beclin1 heterozygous Sequencing libraries were generated using the NEBNext Ultra RNA Library Prep Kit for Illumina #E7530L NEB USA following the manufacturers recommendations     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED ILLUMINA Illumina NovaSeq 6000   SRP253956     Beclin1_R1.fq.gz Beclin1_R2.fq.gz fastq fastq 7286695500.0 24288985.0 Beclin1 R1.fq.gz 0:150 1:150 A:1901077388;C:1739767288;G:1753568948;T:1892271367;N:10509 150 150     1901077388 1739767288 1753568948 1892271367 10509 SRX7990456 SRS6374486 SRA1059106 Huazhong Agricultural University|College of Fisheries Huazhong Agricultural University 2 0.9568 0.95511 0.03708 0.03692 0.78348 0.78352 0.47534 0.47335 150 150 B B biological fallback assumption illumina novaseq_era unknown random_priming nebnext bulk unknown unknown   China 2020-03-25 Adult Adult Liver Liver and Biliary System
58566 58566 SRR11411805 SRX7990455 SRS6374486 SRP253956 PRJNA615045 Strategy of Hepatic Metabolic Defects Induced by beclin1 Heterozygosity in Adult Zebrafish PRJNA615045 Other In our study mutant zebrafish lines of autophagy related genes beclin1 were generated by CRISPR/Cas9 gene editing technology.Interestingly male beclin1 heterozygous zebrafish displayed liver defects in the morphology and histology including abnormal hepatocyte proliferation hemorrhagic and inflammatory phenotypes. In order to better study the phenotype of beclin1 heterozygous zebrafish we extracted RNA from the liver of 12 mpf male beclin1 heterozygous and WT for transcriptomics research.         zebrafish   strain:missing|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:12months|dev stage:sex mature|sex:male|tissue:liver|BioSampleModel:Model organism or animal                 RNA Seq of Danio rerio: adult male liver wildtype wildtype Sequencing libraries were generated using the NEBNext Ultra RNA Library Prep Kit for Illumina #E7530L NEB USA following the manufacturers recommendations     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED ILLUMINA Illumina NovaSeq 6000   SRP253956     WT_R1.fq.gz WT_R2.fq.gz fastq fastq 6960039000.0 23200130.0 WT R1.fq.gz 0:150 1:150 A:1847783132;C:1632610148;G:1649392179;T:1830243147;N:10394 150 150     1847783132 1632610148 1649392179 1830243147 10394 SRX7990455 SRS6374486 SRA1059106 Huazhong Agricultural University|College of Fisheries Huazhong Agricultural University 2 0.97949 0.97756 0.02168 0.02147 0.85038 0.85027 0.1844 0.18611 150 150 B B biological fallback assumption illumina novaseq_era unknown random_priming nebnext bulk unknown unknown   China 2020-03-25 Adult Adult Liver Liver and Biliary System
58979 58979 SRR11610423 SRX8176699 SRS6536454 SRP258542 PRJNA626778 Transcriptome sequencing for larvae and adult zebrafish liver post difenoconazole exposure PRJNA626778 Metagenomics RNA seq was performed on zebrafish larvae post embryos exposed to 0.400 mg/L difenoconazole for 120 h and on zebrafish liver post 21 d exposure in triplicate using Illumina HiSeq X Ten         T10   cultivar:WT type AB strain|age:7 months|dev stage:adult|sex:male|tissue:liver|treatment:D liver1|BioSampleModel:Model organism or animal                 LV 1 D liver1 D liver1 D liver1     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED ILLUMINA HiSeq X Ten   SRP258542     T10_2.fq.gz T10_1.fq.gz fastq fastq 9319416300.0 31064721.0 T10 1.fq.gz 0:150 1:150 A:2382109376;C:2250806492;G:2276209586;T:2410187717;N:103129 150 150     2382109376 2250806492 2276209586 2410187717 103129 SRX8176699 SRS6536454 SRA1069066 Zhejiang Academy of Agricultural Sciences|Institute of Quality and Standard for Agroproducts Zhejiang Academy of Agricultural Sciences 2 0.9335 0.93557 0.0189 0.01748 0.75124 0.75383 0.44403 0.44618 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2020-04-26 Adult Adult Liver Liver and Biliary System
58980 58980 SRR11610424 SRX8176698 SRS6536453 SRP258542 PRJNA626778 Transcriptome sequencing for larvae and adult zebrafish liver post difenoconazole exposure PRJNA626778 Metagenomics RNA seq was performed on zebrafish larvae post embryos exposed to 0.400 mg/L difenoconazole for 120 h and on zebrafish liver post 21 d exposure in triplicate using Illumina HiSeq X Ten         T09   cultivar:WT type AB strain|age:7 months|dev stage:adult|sex:male|tissue:liver|treatment:ck liver3|BioSampleModel:Model organism or animal                 HS 3 ck liver3 ck liver3 ck liver3     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED ILLUMINA HiSeq X Ten   SRP258542     T09_1.fq.gz T09_2.fq.gz fastq fastq 7249750800.0 24165836.0 T09 1.fq.gz 0:150 1:150 A:1872794684;C:1728618707;G:1758442166;T:1889814457;N:80786 150 150     1872794684 1728618707 1758442166 1889814457 80786 SRX8176698 SRS6536453 SRA1069066 Zhejiang Academy of Agricultural Sciences|Institute of Quality and Standard for Agroproducts Zhejiang Academy of Agricultural Sciences 2 0.94025 0.94514 0.02748 0.02696 0.73681 0.74014 0.41226 0.40726 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2020-04-26 Adult Adult Liver Liver and Biliary System
58981 58981 SRR11610425 SRX8176697 SRS6536452 SRP258542 PRJNA626778 Transcriptome sequencing for larvae and adult zebrafish liver post difenoconazole exposure PRJNA626778 Metagenomics RNA seq was performed on zebrafish larvae post embryos exposed to 0.400 mg/L difenoconazole for 120 h and on zebrafish liver post 21 d exposure in triplicate using Illumina HiSeq X Ten         T08   cultivar:WT type AB strain|age:7 months|dev stage:adult|sex:male|tissue:liver|treatment:ck liver2|BioSampleModel:Model organism or animal                 HS 2 ck liver2 ck liver2 ck liver2     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED ILLUMINA HiSeq X Ten   SRP258542     T08_2.fq.gz T08_1.fq.gz fastq fastq 7619471100.0 25398237.0 T08 1.fq.gz 0:150 1:150 A:1975421444;C:1810415163;G:1841274324;T:1992275976;N:84193 150 150     1975421444 1810415163 1841274324 1992275976 84193 SRX8176697 SRS6536452 SRA1069066 Zhejiang Academy of Agricultural Sciences|Institute of Quality and Standard for Agroproducts Zhejiang Academy of Agricultural Sciences 2 0.93693 0.95463 0.03222 0.03219 0.74503 0.74718 0.39856 0.40885 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2020-04-26 Adult Adult Liver Liver and Biliary System
58982 58982 SRR11610426 SRX8176696 SRS6536451 SRP258542 PRJNA626778 Transcriptome sequencing for larvae and adult zebrafish liver post difenoconazole exposure PRJNA626778 Metagenomics RNA seq was performed on zebrafish larvae post embryos exposed to 0.400 mg/L difenoconazole for 120 h and on zebrafish liver post 21 d exposure in triplicate using Illumina HiSeq X Ten         T07   cultivar:WT type AB strain|age:7 months|dev stage:adult|sex:male|tissue:liver|treatment:ck liver1|BioSampleModel:Model organism or animal                 HS 1 ck liver1 ck liver1 ck liver1     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED ILLUMINA HiSeq X Ten   SRP258542     T07_2.fq.gz T07_1.fq.gz fastq fastq 7598635800.0 25328786.0 T07 1.fq.gz 0:150 1:150 A:1958340001;C:1818073157;G:1845003964;T:1977146259;N:72419 150 150     1958340001 1818073157 1845003964 1977146259 72419 SRX8176696 SRS6536451 SRA1069066 Zhejiang Academy of Agricultural Sciences|Institute of Quality and Standard for Agroproducts Zhejiang Academy of Agricultural Sciences 2 0.93509 0.94247 0.02736 0.02598 0.74974 0.75276 0.40332 0.40688 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2020-04-26 Adult Adult Liver Liver and Biliary System
58987 58987 SRR11610431 SRX8176691 SRS6536446 SRP258542 PRJNA626778 Transcriptome sequencing for larvae and adult zebrafish liver post difenoconazole exposure PRJNA626778 Metagenomics RNA seq was performed on zebrafish larvae post embryos exposed to 0.400 mg/L difenoconazole for 120 h and on zebrafish liver post 21 d exposure in triplicate using Illumina HiSeq X Ten         T12   cultivar:WT type AB strain|age:7 months|dev stage:adult|sex:male|tissue:liver|treatment:D liver3|BioSampleModel:Model organism or animal                 LV 3 D liver3 D liver3 D liver3     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED ILLUMINA HiSeq X Ten   SRP258542     T12_1.fq.gz T12_2.fq.gz fastq fastq 7612110000.0 25373700.0 T12 1.fq.gz 0:150 1:150 A:1958111367;C:1822786033;G:1852051043;T:1979077989;N:83568 150 150     1958111367 1822786033 1852051043 1979077989 83568 SRX8176691 SRS6536446 SRA1069066 Zhejiang Academy of Agricultural Sciences|Institute of Quality and Standard for Agroproducts Zhejiang Academy of Agricultural Sciences 2 0.93639 0.94002 0.02691 0.02656 0.73886 0.74266 0.44625 0.44344 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2020-04-26 Adult Adult Liver Liver and Biliary System
58988 58988 SRR11610432 SRX8176690 SRS6536443 SRP258542 PRJNA626778 Transcriptome sequencing for larvae and adult zebrafish liver post difenoconazole exposure PRJNA626778 Metagenomics RNA seq was performed on zebrafish larvae post embryos exposed to 0.400 mg/L difenoconazole for 120 h and on zebrafish liver post 21 d exposure in triplicate using Illumina HiSeq X Ten         T11   cultivar:WT type AB strain|age:7 months|dev stage:adult|sex:male|tissue:liver|treatment:D liver2|BioSampleModel:Model organism or animal                 LV 2 D liver2 D liver2 D liver2     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED ILLUMINA HiSeq X Ten   SRP258542     T11_1.fq.gz T11_2.fq.gz fastq fastq 7896792900.0 26322643.0 T11 1.fq.gz 0:150 1:150 A:2044986556;C:1878620990;G:1910303350;T:2062794067;N:87937 150 150     2044986556 1878620990 1910303350 2062794067 87937 SRX8176690 SRS6536443 SRA1069066 Zhejiang Academy of Agricultural Sciences|Institute of Quality and Standard for Agroproducts Zhejiang Academy of Agricultural Sciences 2 0.93689 0.94251 0.03237 0.03017 0.74255 0.74641 0.40098 0.39777 150 150 B B biological fallback assumption illumina hiseq_era unknown random_priming unknown bulk unknown unknown   China 2020-04-26 Adult Adult Liver Liver and Biliary System
63064 63064 SRR13587396 SRX9982091 SRS8153596 SRP303929 PRJNA698005 Danio rerio Raw sequence reads PRJNA698005 Whole Genome Sequencing Danio rerio Raw RNA sequence reads       Model organism or animal sample from Danio rerio The liver of Danio rerio   isolate:river|age:adult|sex:not collected|tissue:liver|BioSampleModel:Model organism or animal                 9ZL 9ZL 9ZL The liver experiment repeat 3 of Gobiocypris rarus     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED BGISEQ BGISEQ-500   SRP303929     9ZL_1.fq.gz 9ZL_2.fq.gz fastq fastq 8277847200.0 55185648.0 9ZL 1.fq.gz 0:150 1:150 A:2225896552;C:1891447719;G:1890393643;T:2270109286;N:0 150 150     2225896552 1891447719 1890393643 2270109286 0 SRX9982091 SRS8153596 SRA1189625 Center for Ecological and Environmental Sciences|Northwestern Polytechnical University Center for Ecological and Environmental Sciences 1 0.92352   0.05455   0.78634   0.53539   150   B   usable mapping rate bgi bgi unknown random_priming unknown bulk unknown unknown   China 2021-01-30 Adult Adult Liver Liver and Biliary System
63065 63065 SRR13587397 SRX9982090 SRS8153596 SRP303929 PRJNA698005 Danio rerio Raw sequence reads PRJNA698005 Whole Genome Sequencing Danio rerio Raw RNA sequence reads       Model organism or animal sample from Danio rerio The liver of Danio rerio   isolate:river|age:adult|sex:not collected|tissue:liver|BioSampleModel:Model organism or animal                 24ZL 24ZL 24ZL The liver control repeat 3 of Gobiocypris rarus     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED BGISEQ BGISEQ-500   SRP303929     24ZL_1.fq.gz 24ZL_2.fq.gz fastq fastq 8242802100.0 54952014.0 24ZL 1.fq.gz 0:150 1:150 A:2188471818;C:1925051043;G:1912682001;T:2215800017;N:797221 150 150     2188471818 1925051043 1912682001 2215800017 797221 SRX9982090 SRS8153596 SRA1189625 Center for Ecological and Environmental Sciences|Northwestern Polytechnical University Center for Ecological and Environmental Sciences 1 0.96458   0.02693   0.88657   0.1634   150   B   usable mapping rate bgi bgi unknown random_priming unknown bulk unknown unknown   China 2021-01-30 Adult Adult Liver Liver and Biliary System
63066 63066 SRR13587398 SRX9982089 SRS8153596 SRP303929 PRJNA698005 Danio rerio Raw sequence reads PRJNA698005 Whole Genome Sequencing Danio rerio Raw RNA sequence reads       Model organism or animal sample from Danio rerio The liver of Danio rerio   isolate:river|age:adult|sex:not collected|tissue:liver|BioSampleModel:Model organism or animal                 8ZL 8ZL 8ZL The liver experiment repeat 2 of Gobiocypris rarus     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED BGISEQ BGISEQ-500   SRP303929     8ZL_1.fq.gz 8ZL_2.fq.gz fastq fastq 8320145700.0 55467638.0 8ZL 1.fq.gz 0:150 1:150 A:2269869967;C:1877995864;G:1875902564;T:2295652508;N:724797 150 150     2269869967 1877995864 1875902564 2295652508 724797 SRX9982089 SRS8153596 SRA1189625 Center for Ecological and Environmental Sciences|Northwestern Polytechnical University Center for Ecological and Environmental Sciences 1 0.92304   0.06156   0.76934   0.50603   150   B   usable mapping rate bgi bgi unknown random_priming unknown bulk unknown unknown   China 2021-01-30 Adult Adult Liver Liver and Biliary System
63067 63067 SRR13587399 SRX9982088 SRS8153596 SRP303929 PRJNA698005 Danio rerio Raw sequence reads PRJNA698005 Whole Genome Sequencing Danio rerio Raw RNA sequence reads       Model organism or animal sample from Danio rerio The liver of Danio rerio   isolate:river|age:adult|sex:not collected|tissue:liver|BioSampleModel:Model organism or animal                 19Z L 19Z L 19Z L The liver control repeat 2 of Gobiocypris rarus     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED BGISEQ BGISEQ-500   SRP303929     19Z_L_1.fq.gz 19Z_L_2.fq.gz fastq fastq 8201244900.0 54674966.0 19Z L 1.fq.gz 0:150 1:150 A:2200752559;C:1868893233;G:1888687787;T:2242402488;N:508833 150 150     2200752559 1868893233 1888687787 2242402488 508833 SRX9982088 SRS8153596 SRA1189625 Center for Ecological and Environmental Sciences|Northwestern Polytechnical University Center for Ecological and Environmental Sciences 1 0.92245   0.05108   0.81537   0.53503   150   B   usable mapping rate bgi bgi unknown random_priming unknown bulk unknown unknown   China 2021-01-30 Adult Adult Liver Liver and Biliary System
63068 63068 SRR13587400 SRX9982087 SRS8153596 SRP303929 PRJNA698005 Danio rerio Raw sequence reads PRJNA698005 Whole Genome Sequencing Danio rerio Raw RNA sequence reads       Model organism or animal sample from Danio rerio The liver of Danio rerio   isolate:river|age:adult|sex:not collected|tissue:liver|BioSampleModel:Model organism or animal                 10ZL 10ZL 10ZL The liver experiment repeat 1 of Gobiocypris rarus     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED BGISEQ BGISEQ-500   SRP303929     10ZL_1.fq.gz 10ZL_2.fq.gz fastq fastq 8354384700.0 55695898.0 10ZL 1.fq.gz 0:150 1:150 A:2242193475;C:1918649445;G:1915390096;T:2278151684;N:0 150 150     2242193475 1918649445 1915390096 2278151684 0 SRX9982087 SRS8153596 SRA1189625 Center for Ecological and Environmental Sciences|Northwestern Polytechnical University Center for Ecological and Environmental Sciences 1 0.93588   0.03779   0.82467   0.32152   150   B   usable mapping rate bgi bgi unknown random_priming unknown bulk unknown unknown   China 2021-01-30 Adult Adult Liver Liver and Biliary System
63069 63069 SRR13587401 SRX9982086 SRS8153596 SRP303929 PRJNA698005 Danio rerio Raw sequence reads PRJNA698005 Whole Genome Sequencing Danio rerio Raw RNA sequence reads       Model organism or animal sample from Danio rerio The liver of Danio rerio   isolate:river|age:adult|sex:not collected|tissue:liver|BioSampleModel:Model organism or animal                 10Z L 10Z L 10Z L The liver control repeat 1 of Gobiocypris rarus     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED BGISEQ BGISEQ-500   SRP303929     10Z_L_1.fq.gz 10Z_L_2.fq.gz fastq fastq 8165319000.0 54435460.0 10Z L 1.fq.gz 0:150 1:150 A:2167746213;C:1898899329;G:1895642875;T:2202563231;N:467352 150 150     2167746213 1898899329 1895642875 2202563231 467352 SRX9982086 SRS8153596 SRA1189625 Center for Ecological and Environmental Sciences|Northwestern Polytechnical University Center for Ecological and Environmental Sciences 1 0.92701   0.02566   0.85064   0.19733   150   B   usable mapping rate bgi bgi unknown random_priming unknown bulk unknown unknown   China 2021-01-30 Adult Adult Liver Liver and Biliary System
65384 65384 SRR15090129 SRX11400004 SRS9443139 SRP327684 PRJNA745176 5 aminolevulinic acid alleviates alpha cypermethrin toxicity in the liver intestine axis in zebrafish PRJNA745176 Other Transcriptome sequencing of liver tissue shows that ALA rescues the differential gene expression on the oxidation reduction heme metabolism and complement activation pathways associated with alpha CP toxicity.         a CP 2   isolate:Zebrafish Wildtype Lines|age:3 month|sex:not collected|tissue:liver|treatment:α cypermethrin α CP single treatment|replicate:biological replicate 2|BioSampleModel:Model organism or animal                 RNA seq of Danio rerio:liver with cypermethrin CP single treatment CP2 CP2 Transcriptome sequencing of liver tissue isolated from Danio rerio with cypermethrin CP single treatment     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED BGISEQ MGISEQ-2000RS   SRP327684     CP2.1.fq.gz CP2.2.fq.gz fastq fastq 6816619800.0 45444132.0 CP2.1.fq.gz 0:150 1:150 A:1891684962;C:1501309861;G:1520270555;T:1903228215;N:126207 150 150     1891684962 1501309861 1520270555 1903228215 126207 SRX11400004 SRS9443139 SRA1257080 China Agricultural University|Department of Applied Chemistry, College of Scienc China Agricultural University 1 0.90339   0.05682   0.74272   0.4834   150   B   usable mapping rate bgi bgi unknown random_priming unknown bulk unknown unknown   China 2021-07-09 Adult Adult Liver Liver and Biliary System
65385 65385 SRR15090130 SRX11400003 SRS9443138 SRP327684 PRJNA745176 5 aminolevulinic acid alleviates alpha cypermethrin toxicity in the liver intestine axis in zebrafish PRJNA745176 Other Transcriptome sequencing of liver tissue shows that ALA rescues the differential gene expression on the oxidation reduction heme metabolism and complement activation pathways associated with alpha CP toxicity.         a CP 1   isolate:Zebrafish Wildtype Lines|age:3 month|sex:not collected|tissue:liver|treatment:α cypermethrin α CP single treatment|replicate:biological replicate 1|BioSampleModel:Model organism or animal                 RNA seq of Danio rerio:liver with cypermethrin CP single treatment CP1 CP1 Transcriptome sequencing of liver tissue isolated from Danio rerio with cypermethrin CP single treatment     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED BGISEQ MGISEQ-2000RS   SRP327684     CP1.1.fq.gz CP1.2.fq.gz fastq fastq 6801338100.0 45342254.0 CP1.1.fq.gz 0:150 1:150 A:1867686743;C:1516132586;G:1535971522;T:1881429395;N:117854 150 150     1867686743 1516132586 1535971522 1881429395 117854 SRX11400003 SRS9443138 SRA1257080 China Agricultural University|Department of Applied Chemistry, College of Scienc China Agricultural University 1 0.90967   0.04288   0.7433   0.51144   150   B   usable mapping rate bgi bgi unknown random_priming unknown bulk unknown unknown   China 2021-07-09 Adult Adult Liver Liver and Biliary System
65386 65386 SRR15090131 SRX11400002 SRS9443137 SRP327684 PRJNA745176 5 aminolevulinic acid alleviates alpha cypermethrin toxicity in the liver intestine axis in zebrafish PRJNA745176 Other Transcriptome sequencing of liver tissue shows that ALA rescues the differential gene expression on the oxidation reduction heme metabolism and complement activation pathways associated with alpha CP toxicity.         a CP+ALA 2   isolate:Zebrafish Wildtype Lines|age:3 month|sex:not collected|tissue:liver|treatment:α cypermethrin α CP + 5 aminolevulinic acid ALA co treatment|replicate:biological replicate 2|BioSampleModel:Model organism or animal                 RNA seq of Danio rerio:liver with cypermethrin CP + 5 aminolevulinic acid ALA co treatment CP.ALA2 CP.ALA2 Transcriptome sequencing of liver tissue isolated from Danio rerio with cypermethrin CP + 5 aminolevulinic acid ALA co treatment     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED BGISEQ MGISEQ-2000RS   SRP327684     CP.ALA2.1.fq.gz CP.ALA2.2.fq.gz fastq fastq 6826417800.0 45509452.0 CP.ALA2.1.fq.gz 0:150 1:150 A:1880324963;C:1518162498;G:1528544942;T:1899329442;N:55955 150 150     1880324963 1518162498 1528544942 1899329442 55955 SRX11400002 SRS9443137 SRA1257080 China Agricultural University|Department of Applied Chemistry, College of Scienc China Agricultural University 1 0.90511   0.03383   0.75225   0.50503   150   B   usable mapping rate bgi bgi unknown random_priming unknown bulk unknown unknown   China 2021-07-09 Adult Adult Liver Liver and Biliary System
65387 65387 SRR15090132 SRX11400001 SRS9443136 SRP327684 PRJNA745176 5 aminolevulinic acid alleviates alpha cypermethrin toxicity in the liver intestine axis in zebrafish PRJNA745176 Other Transcriptome sequencing of liver tissue shows that ALA rescues the differential gene expression on the oxidation reduction heme metabolism and complement activation pathways associated with alpha CP toxicity.         a CP+ALA 1   isolate:Zebrafish Wildtype Lines|age:3 month|sex:not collected|tissue:liver|treatment:α cypermethrin α CP + 5 aminolevulinic acid ALA co treatment|replicate:biological replicate 1|BioSampleModel:Model organism or animal                 RNA seq of Danio rerio:liver with cypermethrin CP + 5 aminolevulinic acid ALA co treatment CP.ALA1 CP.ALA1 Transcriptome sequencing of liver tissue isolated from Danio rerio with cypermethrin CP + 5 aminolevulinic acid ALA co treatment     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED BGISEQ MGISEQ-2000RS   SRP327684     CP.ALA1.1.fq.gz CP.ALA1.2.fq.gz fastq fastq 6787614000.0 45250760.0 CP.ALA1.1.fq.gz 0:150 1:150 A:1883241447;C:1496341973;G:1511662052;T:1896312396;N:56132 150 150     1883241447 1496341973 1511662052 1896312396 56132 SRX11400001 SRS9443136 SRA1257080 China Agricultural University|Department of Applied Chemistry, College of Scienc China Agricultural University 1 0.89741   0.03801   0.74943   0.50457   150   B   usable mapping rate bgi bgi unknown random_priming unknown bulk unknown unknown   China 2021-07-09 Adult Adult Liver Liver and Biliary System
65388 65388 SRR15090133 SRX11400000 SRS9443135 SRP327684 PRJNA745176 5 aminolevulinic acid alleviates alpha cypermethrin toxicity in the liver intestine axis in zebrafish PRJNA745176 Other Transcriptome sequencing of liver tissue shows that ALA rescues the differential gene expression on the oxidation reduction heme metabolism and complement activation pathways associated with alpha CP toxicity.         Control 2   isolate:Zebrafish Wildtype Lines|age:3 month|sex:not collected|tissue:liver|treatment:Control treatment|replicate:biological replicate 2|BioSampleModel:Model organism or animal                 RNA seq of Danio rerio:liver with Control treatment CK 2 CK 2 Transcriptome sequencing of liver tissue isolated from Danio rerio with untreatment     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED BGISEQ MGISEQ-2000RS   SRP327684     CK2.1.fq.gz CK2.2.fq.gz fastq fastq 4937307600.0 32915384.0 CK2.1.fq.gz 0:150 1:150 A:1353639761;C:1104257332;G:1111219864;T:1368151010;N:39633 150 150     1353639761 1104257332 1111219864 1368151010 39633 SRX11400000 SRS9443135 SRA1257080 China Agricultural University|Department of Applied Chemistry, College of Scienc China Agricultural University 1 0.90129   0.03238   0.75406   0.49273   150   B   usable mapping rate bgi bgi unknown random_priming unknown bulk unknown unknown   China 2021-07-09 Adult Adult Liver Liver and Biliary System
65389 65389 SRR15090134 SRX11399999 SRS9443134 SRP327684 PRJNA745176 5 aminolevulinic acid alleviates alpha cypermethrin toxicity in the liver intestine axis in zebrafish PRJNA745176 Other Transcriptome sequencing of liver tissue shows that ALA rescues the differential gene expression on the oxidation reduction heme metabolism and complement activation pathways associated with alpha CP toxicity.         Control 1   isolate:Zebrafish Wildtype Lines|age:3 month|sex:not collected|tissue:liver|treatment:Control treatment|replicate:biological replicate 1|BioSampleModel:Model organism or animal                 RNA seq of Danio rerio:liver with Control treatment CK 1 CK 1 Transcriptome sequencing of liver tissue isolated from Danio rerio with untreatment     RNA-Seq TRANSCRIPTOMIC RANDOM PAIRED BGISEQ MGISEQ-2000RS   SRP327684     CK1.1.fq.gz CK1.2.fq.gz fastq fastq 5002504200.0 33350028.0 CK1.1.fq.gz 0:150 1:150 A:1371483028;C:1118930644;G:1125887754;T:1386162333;N:40441 150 150     1371483028 1118930644 1125887754 1386162333 40441 SRX11399999 SRS9443134 SRA1257080 China Agricultural University|Department of Applied Chemistry, College of Scienc China Agricultural University 1 0.90179   0.03287   0.75349   0.49689   150   B   usable mapping rate bgi bgi unknown random_priming unknown bulk unknown unknown   China 2021-07-09 Adult Adult Liver Liver and Biliary System

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