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
28470,SRR26253203,SRX21963295,SRS19039869,SRP464138,PRJNA1022587,Danio rerio Raw sequence reads,PRJNA1022587,Whole Genome Sequencing,In teleost  type I IFNs are categorized into 2 subgroups containing one or two pairs of disulphide bond. However  their functional differences have not been fully unveiled. It has been shown that IFN1 can be induced by viruses and trigger strong antiviral response in inducing hundreds of IFN stimulated genes   conferring cell resistance to viruses. However  the antiviral functions of IFN4 have been debated. To investigate the genes modulated by IFN1 and IFN4  ZF4 cells were stimulated with recombinant IFN1 and IFN4  and were performed transcriptome analysis of the small RNA.,,,,,Small RNA IFN4 2,,strain:not collected|age:not collected|collection date:2023 08 20|geo loc name:not collected|sex:not collected|tissue:not collected|cell line:ZF4|replicate:biological replicate 22|BioSampleModel:Model organism or animal,,,,,,,,,Small RNAseq of zebrafish,Small RNA IFND2,Small RNA IFND2,small RNA seq of zebrafish,,,miRNA-Seq,TRANSCRIPTOMIC,PCR,SINGLE,ILLUMINA,Illumina NovaSeq 6000,,SRP464138,,,IFN4-2.deadaptor.fq.gz,fastq,278362309.0,11056139.0,IFN4 2.deadaptor.fq.gz,0:25.18,A:71944968;C:54562141;G:73333701;T:78511075;N:10424,25,,,,71944968,54562141,73333701,78511075,10424,SRX21963295,SRS19039869,SRA1724093,Shanghai Ocean University|College of Fisheries and Life Science,Shanghai Ocean University,1,0.93133,,0.07401,,0.96181,,0.74558,,31,,B,,usable mapping rate,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-10-02,Undetermined,Undetermined,Cell Line,Cell Line
28471,SRR26253204,SRX21963294,SRS19039868,SRP464138,PRJNA1022587,Danio rerio Raw sequence reads,PRJNA1022587,Whole Genome Sequencing,In teleost  type I IFNs are categorized into 2 subgroups containing one or two pairs of disulphide bond. However  their functional differences have not been fully unveiled. It has been shown that IFN1 can be induced by viruses and trigger strong antiviral response in inducing hundreds of IFN stimulated genes   conferring cell resistance to viruses. However  the antiviral functions of IFN4 have been debated. To investigate the genes modulated by IFN1 and IFN4  ZF4 cells were stimulated with recombinant IFN1 and IFN4  and were performed transcriptome analysis of the small RNA.,,,,,Small RNA IFN4 1,,strain:not collected|age:not collected|collection date:2023 08 20|geo loc name:not collected|sex:not collected|tissue:not collected|cell line:ZF4|replicate:biological replicate 21|BioSampleModel:Model organism or animal,,,,,,,,,Small RNAseq of zebrafish,Small RNA IFND1,Small RNA IFND1,small RNA seq of zebrafish,,,miRNA-Seq,TRANSCRIPTOMIC,PCR,SINGLE,ILLUMINA,Illumina NovaSeq 6000,,SRP464138,,,IFN4-1.deadaptor.fq.gz,fastq,289362334.0,11048590.0,IFN4 1.deadaptor.fq.gz,0:26.19,A:73933649;C:59386039;G:76847534;T:79184583;N:10529,26,,,,73933649,59386039,76847534,79184583,10529,SRX21963294,SRS19039868,SRA1724093,Shanghai Ocean University|College of Fisheries and Life Science,Shanghai Ocean University,1,0.91683,,0.07099,,0.96132,,0.64882,,25,,B,,usable mapping rate,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-10-02,Undetermined,Undetermined,Cell Line,Cell Line
28472,SRR26253205,SRX21963293,SRS19039867,SRP464138,PRJNA1022587,Danio rerio Raw sequence reads,PRJNA1022587,Whole Genome Sequencing,In teleost  type I IFNs are categorized into 2 subgroups containing one or two pairs of disulphide bond. However  their functional differences have not been fully unveiled. It has been shown that IFN1 can be induced by viruses and trigger strong antiviral response in inducing hundreds of IFN stimulated genes   conferring cell resistance to viruses. However  the antiviral functions of IFN4 have been debated. To investigate the genes modulated by IFN1 and IFN4  ZF4 cells were stimulated with recombinant IFN1 and IFN4  and were performed transcriptome analysis of the small RNA.,,,,,Small RNA IFN1 4,,strain:not collected|age:not collected|collection date:2023 08 20|geo loc name:not collected|sex:not collected|tissue:not collected|cell line:ZF4|replicate:biological replicate 20|BioSampleModel:Model organism or animal,,,,,,,,,Small RNAseq of zebrafish,Small RNA IFNA4,Small RNA IFNA4,small RNA seq of zebrafish,,,miRNA-Seq,TRANSCRIPTOMIC,PCR,SINGLE,ILLUMINA,Illumina NovaSeq 6000,,SRP464138,,,IFN1-4.deadaptor.fq.gz,fastq,270529395.0,11070360.0,IFN1 4.deadaptor.fq.gz,0:24.44,A:69759888;C:54924667;G:71358091;T:74470720;N:16029,24,,,,69759888,54924667,71358091,74470720,16029,SRX21963293,SRS19039867,SRA1724093,Shanghai Ocean University|College of Fisheries and Life Science,Shanghai Ocean University,1,0.88469,,0.06696,,0.96664,,0.74853,,22,,B,,usable mapping rate,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-10-02,Undetermined,Undetermined,Cell Line,Cell Line
28473,SRR26253206,SRX21963292,SRS19039866,SRP464138,PRJNA1022587,Danio rerio Raw sequence reads,PRJNA1022587,Whole Genome Sequencing,In teleost  type I IFNs are categorized into 2 subgroups containing one or two pairs of disulphide bond. However  their functional differences have not been fully unveiled. It has been shown that IFN1 can be induced by viruses and trigger strong antiviral response in inducing hundreds of IFN stimulated genes   conferring cell resistance to viruses. However  the antiviral functions of IFN4 have been debated. To investigate the genes modulated by IFN1 and IFN4  ZF4 cells were stimulated with recombinant IFN1 and IFN4  and were performed transcriptome analysis of the small RNA.,,,,,Small RNA IFN1 3,,strain:not collected|age:not collected|collection date:2023 08 20|geo loc name:not collected|sex:not collected|tissue:not collected|cell line:ZF4|replicate:biological replicate 19|BioSampleModel:Model organism or animal,,,,,,,,,Small RNAseq of zebrafish,Small RNA IFNA3,Small RNA IFNA3,small RNA seq of zebrafish,,,miRNA-Seq,TRANSCRIPTOMIC,PCR,SINGLE,ILLUMINA,Illumina NovaSeq 6000,,SRP464138,,,IFN1-3.deadaptor.fq.gz,fastq,353291957.0,11740560.0,IFN1 3.deadaptor.fq.gz,0:30.09,A:89026549;C:76490337;G:94719420;T:93036955;N:18696,30,,,,89026549,76490337,94719420,93036955,18696,SRX21963292,SRS19039866,SRA1724093,Shanghai Ocean University|College of Fisheries and Life Science,Shanghai Ocean University,1,0.83151,,0.07199,,0.96471,,0.71641,,22,,B,,usable mapping rate,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-10-02,Undetermined,Undetermined,Cell Line,Cell Line
28474,SRR26253207,SRX21963291,SRS19039865,SRP464138,PRJNA1022587,Danio rerio Raw sequence reads,PRJNA1022587,Whole Genome Sequencing,In teleost  type I IFNs are categorized into 2 subgroups containing one or two pairs of disulphide bond. However  their functional differences have not been fully unveiled. It has been shown that IFN1 can be induced by viruses and trigger strong antiviral response in inducing hundreds of IFN stimulated genes   conferring cell resistance to viruses. However  the antiviral functions of IFN4 have been debated. To investigate the genes modulated by IFN1 and IFN4  ZF4 cells were stimulated with recombinant IFN1 and IFN4  and were performed transcriptome analysis of the small RNA.,,,,,Small RNA IFN1 2,,strain:not collected|age:not collected|collection date:2023 08 20|geo loc name:not collected|sex:not collected|tissue:not collected|cell line:ZF4|replicate:biological replicate 18|BioSampleModel:Model organism or animal,,,,,,,,,Small RNAseq of zebrafish,Small RNA IFNA2,Small RNA IFNA2,small RNA seq of zebrafish,,,miRNA-Seq,TRANSCRIPTOMIC,PCR,SINGLE,ILLUMINA,Illumina NovaSeq 6000,,SRP464138,,,IFN1-2.deadaptor.fq.gz,fastq,257949577.0,11213774.0,IFN1 2.deadaptor.fq.gz,0:23.00,A:67371681;C:51128621;G:67605590;T:71826657;N:17028,23,,,,67371681,51128621,67605590,71826657,17028,SRX21963291,SRS19039865,SRA1724093,Shanghai Ocean University|College of Fisheries and Life Science,Shanghai Ocean University,1,0.91396,,0.06536,,0.97197,,0.76269,,23,,B,,usable mapping rate,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-10-02,Undetermined,Undetermined,Cell Line,Cell Line
28475,SRR26253208,SRX21963290,SRS19039864,SRP464138,PRJNA1022587,Danio rerio Raw sequence reads,PRJNA1022587,Whole Genome Sequencing,In teleost  type I IFNs are categorized into 2 subgroups containing one or two pairs of disulphide bond. However  their functional differences have not been fully unveiled. It has been shown that IFN1 can be induced by viruses and trigger strong antiviral response in inducing hundreds of IFN stimulated genes   conferring cell resistance to viruses. However  the antiviral functions of IFN4 have been debated. To investigate the genes modulated by IFN1 and IFN4  ZF4 cells were stimulated with recombinant IFN1 and IFN4  and were performed transcriptome analysis of the small RNA.,,,,,Small RNA IFN1 1,,strain:not collected|age:not collected|collection date:2023 08 20|geo loc name:not collected|sex:not collected|tissue:not collected|cell line:ZF4|replicate:biological replicate 17|BioSampleModel:Model organism or animal,,,,,,,,,Small RNAseq of zebrafish,Small RNA IFNA1,Small RNA IFNA1,small RNA seq of zebrafish,,,miRNA-Seq,TRANSCRIPTOMIC,PCR,SINGLE,ILLUMINA,Illumina NovaSeq 6000,,SRP464138,,,IFN1-1.deadaptor.fq.gz,fastq,329358383.0,11799176.0,IFN1 1.deadaptor.fq.gz,0:27.91,A:84093681;C:68961271;G:86502739;T:89779605;N:21087,27,,,,84093681,68961271,86502739,89779605,21087,SRX21963290,SRS19039864,SRA1724093,Shanghai Ocean University|College of Fisheries and Life Science,Shanghai Ocean University,1,0.92116,,0.07483,,0.96796,,0.75179,,22,,B,,usable mapping rate,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-10-02,Undetermined,Undetermined,Cell Line,Cell Line
28476,SRR26253209,SRX21963289,SRS19039863,SRP464138,PRJNA1022587,Danio rerio Raw sequence reads,PRJNA1022587,Whole Genome Sequencing,In teleost  type I IFNs are categorized into 2 subgroups containing one or two pairs of disulphide bond. However  their functional differences have not been fully unveiled. It has been shown that IFN1 can be induced by viruses and trigger strong antiviral response in inducing hundreds of IFN stimulated genes   conferring cell resistance to viruses. However  the antiviral functions of IFN4 have been debated. To investigate the genes modulated by IFN1 and IFN4  ZF4 cells were stimulated with recombinant IFN1 and IFN4  and were performed transcriptome analysis of the small RNA.,,,,,Small RNA Control 4,,strain:not collected|age:not collected|collection date:2023 08 20|geo loc name:not collected|sex:not collected|tissue:not collected|cell line:ZF4|replicate:biological replicate 16|BioSampleModel:Model organism or animal,,,,,,,,,Small RNAseq of zebrafish,Small RNA C4,Small RNA C4,small RNA seq of zebrafish,,,miRNA-Seq,TRANSCRIPTOMIC,PCR,SINGLE,ILLUMINA,Illumina NovaSeq 6000,,SRP464138,,,Control-4.deadaptor.fq.gz,fastq,251577736.0,10951659.0,Control 4.deadaptor.fq.gz,0:22.97,A:65382449;C:50041232;G:66038625;T:70106464;N:8966,22,,,,65382449,50041232,66038625,70106464,8966,SRX21963289,SRS19039863,SRA1724093,Shanghai Ocean University|College of Fisheries and Life Science,Shanghai Ocean University,1,0.89744,,0.06821,,0.96607,,0.63829,,22,,B,,usable mapping rate,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-10-02,Undetermined,Undetermined,Cell Line,Cell Line
28477,SRR26253210,SRX21963288,SRS19039862,SRP464138,PRJNA1022587,Danio rerio Raw sequence reads,PRJNA1022587,Whole Genome Sequencing,In teleost  type I IFNs are categorized into 2 subgroups containing one or two pairs of disulphide bond. However  their functional differences have not been fully unveiled. It has been shown that IFN1 can be induced by viruses and trigger strong antiviral response in inducing hundreds of IFN stimulated genes   conferring cell resistance to viruses. However  the antiviral functions of IFN4 have been debated. To investigate the genes modulated by IFN1 and IFN4  ZF4 cells were stimulated with recombinant IFN1 and IFN4  and were performed transcriptome analysis of the small RNA.,,,,,Small RNA Control 3,,strain:not collected|age:not collected|collection date:2023 08 20|geo loc name:not collected|sex:not collected|tissue:not collected|cell line:ZF4|replicate:biological replicate 15|BioSampleModel:Model organism or animal,,,,,,,,,Small RNAseq of zebrafish,Small RNA C3,Small RNA C3,small RNA seq of zebrafish,,,miRNA-Seq,TRANSCRIPTOMIC,PCR,SINGLE,ILLUMINA,Illumina NovaSeq 6000,,SRP464138,,,Control-3.deadaptor.fq.gz,fastq,252164979.0,11004167.0,Control 3.deadaptor.fq.gz,0:22.92,A:65850899;C:48466665;G:66708038;T:71130786;N:8591,22,,,,65850899,48466665,66708038,71130786,8591,SRX21963288,SRS19039862,SRA1724093,Shanghai Ocean University|College of Fisheries and Life Science,Shanghai Ocean University,1,0.91567,,0.06804,,0.96278,,0.75579,,22,,B,,usable mapping rate,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-10-02,Undetermined,Undetermined,Cell Line,Cell Line
28478,SRR26253211,SRX21963287,SRS19039861,SRP464138,PRJNA1022587,Danio rerio Raw sequence reads,PRJNA1022587,Whole Genome Sequencing,In teleost  type I IFNs are categorized into 2 subgroups containing one or two pairs of disulphide bond. However  their functional differences have not been fully unveiled. It has been shown that IFN1 can be induced by viruses and trigger strong antiviral response in inducing hundreds of IFN stimulated genes   conferring cell resistance to viruses. However  the antiviral functions of IFN4 have been debated. To investigate the genes modulated by IFN1 and IFN4  ZF4 cells were stimulated with recombinant IFN1 and IFN4  and were performed transcriptome analysis of the small RNA.,,,,,Small RNA IFN4 4,,strain:not collected|age:not collected|collection date:2023 08 20|geo loc name:not collected|sex:not collected|tissue:not collected|cell line:ZF4|replicate:biological replicate 24|BioSampleModel:Model organism or animal,,,,,,,,,Small RNAseq of zebrafish,Small RNA IFND4,Small RNA IFND4,small RNA seq of zebrafish,,,miRNA-Seq,TRANSCRIPTOMIC,PCR,SINGLE,ILLUMINA,Illumina NovaSeq 6000,,SRP464138,,,IFN4-4.deadaptor.fq.gz,fastq,291708053.0,11503883.0,IFN4 4.deadaptor.fq.gz,0:25.36,A:74079231;C:61368459;G:76898572;T:79351225;N:10566,25,,,,74079231,61368459,76898572,79351225,10566,SRX21963287,SRS19039861,SRA1724093,Shanghai Ocean University|College of Fisheries and Life Science,Shanghai Ocean University,1,0.88888,,0.0633,,0.97305,,0.74862,,23,,B,,usable mapping rate,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-10-02,Undetermined,Undetermined,Cell Line,Cell Line
28479,SRR26253212,SRX21963286,SRS19039860,SRP464138,PRJNA1022587,Danio rerio Raw sequence reads,PRJNA1022587,Whole Genome Sequencing,In teleost  type I IFNs are categorized into 2 subgroups containing one or two pairs of disulphide bond. However  their functional differences have not been fully unveiled. It has been shown that IFN1 can be induced by viruses and trigger strong antiviral response in inducing hundreds of IFN stimulated genes   conferring cell resistance to viruses. However  the antiviral functions of IFN4 have been debated. To investigate the genes modulated by IFN1 and IFN4  ZF4 cells were stimulated with recombinant IFN1 and IFN4  and were performed transcriptome analysis of the small RNA.,,,,,Small RNA IFN4 3,,strain:not collected|age:not collected|collection date:2023 08 20|geo loc name:not collected|sex:not collected|tissue:not collected|cell line:ZF4|replicate:biological replicate 23|BioSampleModel:Model organism or animal,,,,,,,,,Small RNAseq of zebrafish,Small RNA IFND3,Small RNA IFND3,small RNA seq of zebrafish,,,miRNA-Seq,TRANSCRIPTOMIC,PCR,SINGLE,ILLUMINA,Illumina NovaSeq 6000,,SRP464138,,,IFN4-3.deadaptor.fq.gz,fastq,349995495.0,11885662.0,IFN4 3.deadaptor.fq.gz,0:29.45,A:87443709;C:76373108;G:92741296;T:93425866;N:11516,29,,,,87443709,76373108,92741296,93425866,11516,SRX21963286,SRS19039860,SRA1724093,Shanghai Ocean University|College of Fisheries and Life Science,Shanghai Ocean University,1,0.92619,,0.06843,,0.9709,,0.74977,,73,,B,,usable mapping rate,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-10-02,Undetermined,Undetermined,Cell Line,Cell Line
28480,SRR26253213,SRX21963285,SRS19039859,SRP464138,PRJNA1022587,Danio rerio Raw sequence reads,PRJNA1022587,Whole Genome Sequencing,In teleost  type I IFNs are categorized into 2 subgroups containing one or two pairs of disulphide bond. However  their functional differences have not been fully unveiled. It has been shown that IFN1 can be induced by viruses and trigger strong antiviral response in inducing hundreds of IFN stimulated genes   conferring cell resistance to viruses. However  the antiviral functions of IFN4 have been debated. To investigate the genes modulated by IFN1 and IFN4  ZF4 cells were stimulated with recombinant IFN1 and IFN4  and were performed transcriptome analysis of the small RNA.,,,,,Small RNA Control 2,,strain:not collected|age:not collected|collection date:2023 08 20|geo loc name:not collected|sex:not collected|tissue:not collected|cell line:ZF4|replicate:biological replicate 14|BioSampleModel:Model organism or animal,,,,,,,,,Small RNAseq of zebrafish,Small RNA C2,Small RNA C2,small RNA seq of zebrafish,,,miRNA-Seq,TRANSCRIPTOMIC,PCR,SINGLE,ILLUMINA,Illumina NovaSeq 6000,,SRP464138,,,Control-2.deadaptor.fq.gz,fastq,254163676.0,10744164.0,Control 2.deadaptor.fq.gz,0:23.66,A:66003417;C:49309846;G:67463940;T:71377644;N:8829,23,,,,66003417,49309846,67463940,71377644,8829,SRX21963285,SRS19039859,SRA1724093,Shanghai Ocean University|College of Fisheries and Life Science,Shanghai Ocean University,1,0.93068,,0.06626,,0.96441,,0.7492,,22,,B,,usable mapping rate,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-10-02,Undetermined,Undetermined,Cell Line,Cell Line
28481,SRR26253214,SRX21963284,SRS19039858,SRP464138,PRJNA1022587,Danio rerio Raw sequence reads,PRJNA1022587,Whole Genome Sequencing,In teleost  type I IFNs are categorized into 2 subgroups containing one or two pairs of disulphide bond. However  their functional differences have not been fully unveiled. It has been shown that IFN1 can be induced by viruses and trigger strong antiviral response in inducing hundreds of IFN stimulated genes   conferring cell resistance to viruses. However  the antiviral functions of IFN4 have been debated. To investigate the genes modulated by IFN1 and IFN4  ZF4 cells were stimulated with recombinant IFN1 and IFN4  and were performed transcriptome analysis of the small RNA.,,,,,Small RNA Control 1,,strain:not collected|age:not collected|collection date:2023 08 20|geo loc name:not collected|sex:not collected|tissue:not collected|cell line:ZF4|replicate:biological replicate 13|BioSampleModel:Model organism or animal,,,,,,,,,Small RNAseq of zebrafish,Small RNA C1,Small RNA C1,small RNA seq of zebrafish,,,miRNA-Seq,TRANSCRIPTOMIC,PCR,SINGLE,ILLUMINA,Illumina NovaSeq 6000,,SRP464138,,,Control-1.deadaptor.fq.gz,fastq,267090429.0,11027241.0,Control 1.deadaptor.fq.gz,0:24.22,A:70162511;C:50705437;G:69872659;T:76339682;N:10140,24,,,,70162511,50705437,69872659,76339682,10140,SRX21963284,SRS19039858,SRA1724093,Shanghai Ocean University|College of Fisheries and Life Science,Shanghai Ocean University,1,0.93267,,0.07189,,0.96735,,0.75447,,21,,B,,usable mapping rate,illumina,novaseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2023-10-02,Undetermined,Undetermined,Cell Line,Cell Line
30250,SRR27756860,SRX23421865,SRS20276790,SRP486416,PRJNA1069604,Danio rerio strain:TL | breed:Danio rerio Raw sequence reads,PRJNA1069604,Other,To study the effect of a gene deletion in zebrafish,,,,Model organism or animal sample from danio rerio,cobll1a,,ecotype:missing|dev stage:missing|collection date:2023 02 21|geo loc name:missing|sex:neuter|tissue:FISH|biomaterial provider:missing|z:1000|BioSampleModel:Model organism or animal,,,,,,,,,Sample A,1,1,common method,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP486416,,,cobll1a1.R2.fq.gz cobll1a1.R1.fq.gz,fastq fastq,7119566009.0,24893517.0,cobll1a1.R1.fq.gz,0:143.02 1:142.98,A:1899718926;C:1652762152;G:1669973661;T:1897092278;N:18992,143,142,,,1899718926,1652762152,1669973661,1897092278,18992,SRX23421865,SRS20276790,SRA1792726,Hunan Normal University|Hunan Normal University,Hunan Normal University Hunan Normal University Hunan Normal University,2,0.95825,0.95956,0.0788,0.07795,0.67894,0.67884,0.48342,0.48268,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2024-01-29,Undetermined,Undetermined,Undetermined,Undetermined
30251,SRR27756861,SRX23421864,SRS20276789,SRP486416,PRJNA1069604,Danio rerio strain:TL | breed:Danio rerio Raw sequence reads,PRJNA1069604,Other,To study the effect of a gene deletion in zebrafish,,,,MIMARKS Specimen sample from Danio rerio,WT,,strain:WT|collection date:2023 02 28|depth:missing|elev:missing|env broad scale:missing|env local scale:missing|env medium:missing|geo loc name:missing|isol growth condt:missing|lat lon:missing|BioSampleModel:MIMARKS.specimen|BioSampleModel:MIGS/MIMS/MIMARKS.microbial,,,,,,,,,Sample L,11,11,common method,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP486416,,,tu3.R1.fq.gz tu3.R2.fq.gz,fastq fastq,6881670461.0,24208326.0,tu3.R1.fq.gz,0:142.15 1:142.12,A:1820714788;C:1612866668;G:1629078247;T:1818992861;N:17897,142,142,,,1820714788,1612866668,1629078247,1818992861,17897,SRX23421864,SRS20276789,SRA1792726,Hunan Normal University|Hunan Normal University,Hunan Normal University Hunan Normal University Hunan Normal University,2,0.95713,0.95821,0.07191,0.07071,0.67801,0.67726,0.48591,0.48501,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2024-01-29,Undetermined,Undetermined,Undetermined,Undetermined
30252,SRR27756862,SRX23421863,SRS20276790,SRP486416,PRJNA1069604,Danio rerio strain:TL | breed:Danio rerio Raw sequence reads,PRJNA1069604,Other,To study the effect of a gene deletion in zebrafish,,,,Model organism or animal sample from danio rerio,cobll1a,,ecotype:missing|dev stage:missing|collection date:2023 02 21|geo loc name:missing|sex:neuter|tissue:FISH|biomaterial provider:missing|z:1000|BioSampleModel:Model organism or animal,,,,,,,,,Sample C,3,3,common method,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP486416,,,cobll1a2.R1.fq.gz cobll1a2.R2.fq.gz,fastq fastq,6639076778.0,23213579.0,cobll1a2.R1.fq.gz,0:143.02 1:142.98,A:1799749408;C:1513051586;G:1530064901;T:1796193421;N:17462,143,142,,,1799749408,1513051586,1530064901,1796193421,17462,SRX23421863,SRS20276790,SRA1792726,Hunan Normal University|Hunan Normal University,Hunan Normal University Hunan Normal University Hunan Normal University,2,0.95695,0.95781,0.091,0.0896,0.68199,0.68075,0.49051,0.49057,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2024-01-29,Undetermined,Undetermined,Undetermined,Undetermined
30253,SRR27756863,SRX23421862,SRS20276790,SRP486416,PRJNA1069604,Danio rerio strain:TL | breed:Danio rerio Raw sequence reads,PRJNA1069604,Other,To study the effect of a gene deletion in zebrafish,,,,Model organism or animal sample from danio rerio,cobll1a,,ecotype:missing|dev stage:missing|collection date:2023 02 21|geo loc name:missing|sex:neuter|tissue:FISH|biomaterial provider:missing|z:1000|BioSampleModel:Model organism or animal,,,,,,,,,Sample E,5,5,common method,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP486416,,,cobll1a3.R2.fq.gz cobll1a3.R1.fq.gz,fastq fastq,6697695084.0,23490214.0,cobll1a3.R1.fq.gz,0:142.58 1:142.55,A:1755043056;C:1586242926;G:1602146148;T:1754245480;N:17474,142,142,,,1755043056,1586242926,1602146148,1754245480,17474,SRX23421862,SRS20276790,SRA1792726,Hunan Normal University|Hunan Normal University,Hunan Normal University Hunan Normal University Hunan Normal University,2,0.96007,0.96224,0.06487,0.06404,0.66939,0.66906,0.48829,0.48765,130,130,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2024-01-29,Undetermined,Undetermined,Undetermined,Undetermined
30254,SRR27756864,SRX23421861,SRS20276789,SRP486416,PRJNA1069604,Danio rerio strain:TL | breed:Danio rerio Raw sequence reads,PRJNA1069604,Other,To study the effect of a gene deletion in zebrafish,,,,MIMARKS Specimen sample from Danio rerio,WT,,strain:WT|collection date:2023 02 28|depth:missing|elev:missing|env broad scale:missing|env local scale:missing|env medium:missing|geo loc name:missing|isol growth condt:missing|lat lon:missing|BioSampleModel:MIMARKS.specimen|BioSampleModel:MIGS/MIMS/MIMARKS.microbial,,,,,,,,,Sample G,7,7,common method,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP486416,,,tu1.R1.fq.gz tu1.R2.fq.gz,fastq fastq,7124072376.0,25020568.0,tu1.R1.fq.gz,0:142.38 1:142.35,A:1889928651;C:1664950324;G:1681768417;T:1887406325;N:18659,142,142,,,1889928651,1664950324,1681768417,1887406325,18659,SRX23421861,SRS20276789,SRA1792726,Hunan Normal University|Hunan Normal University,Hunan Normal University Hunan Normal University Hunan Normal University,2,0.96032,0.96145,0.07398,0.07359,0.68503,0.6843,0.48524,0.48933,116,116,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2024-01-29,Undetermined,Undetermined,Undetermined,Undetermined
30255,SRR27756865,SRX23421860,SRS20276789,SRP486416,PRJNA1069604,Danio rerio strain:TL | breed:Danio rerio Raw sequence reads,PRJNA1069604,Other,To study the effect of a gene deletion in zebrafish,,,,MIMARKS Specimen sample from Danio rerio,WT,,strain:WT|collection date:2023 02 28|depth:missing|elev:missing|env broad scale:missing|env local scale:missing|env medium:missing|geo loc name:missing|isol growth condt:missing|lat lon:missing|BioSampleModel:MIMARKS.specimen|BioSampleModel:MIGS/MIMS/MIMARKS.microbial,,,,,,,,,Sample J,9,9,common method,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP486416,,,tu2.R1.fq.gz tu2.R2.fq.gz,fastq fastq,7024719799.0,24627933.0,tu2.R1.fq.gz,0:142.63 1:142.60,A:1841519314;C:1662861553;G:1679614735;T:1840705226;N:18971,142,142,,,1841519314,1662861553,1679614735,1840705226,18971,SRX23421860,SRS20276789,SRA1792726,Hunan Normal University|Hunan Normal University,Hunan Normal University Hunan Normal University Hunan Normal University,2,0.96006,0.96141,0.06713,0.06631,0.67464,0.67426,0.48684,0.48648,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2024-01-29,Undetermined,Undetermined,Undetermined,Undetermined
30702,SRR28328136,SRX23936571,SRS20740255,SRP494948,PRJNA1086823,Danio rerio Raw sequence reads,PRJNA1086823,Whole Genome Sequencing,Study the effects on the body when this gene is lost,,,Study the effects on the body when this gene is lost,Model organism or animal sample from Danio rerio,tu ,,strain:FISH|age:2|collection date:2023 02 28|geo loc name:missing|sex:missing|tissue:missing|biomaterial provider:missing|BioSampleModel:Model organism or animal,,,,,,,,,SampleF,6,6,control,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP494948,,,tu_3.R1.raw.fastq.gz tu_3.R2.raw.fastq.gz,fastq fastq,6836795894.0,22638397.0,tu 3.R1.raw.fastq.gz,0:151 1:151,A:1911756035;C:1496221872;G:1563235044;T:1865509810;N:73133,151,151,,,1911756035,1496221872,1563235044,1865509810,73133,SRX23936571,SRS20740255,SRA1823374,Hunan Normal University|Hunan Normal University,Hunan Normal University,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2024-03-13,Undetermined,Undetermined,Trunk,Surface Structure
30703,SRR28328137,SRX23936570,SRS20740255,SRP494948,PRJNA1086823,Danio rerio Raw sequence reads,PRJNA1086823,Whole Genome Sequencing,Study the effects on the body when this gene is lost,,,Study the effects on the body when this gene is lost,Model organism or animal sample from Danio rerio,tu ,,strain:FISH|age:2|collection date:2023 02 28|geo loc name:missing|sex:missing|tissue:missing|biomaterial provider:missing|BioSampleModel:Model organism or animal,,,,,,,,,SampleE,5,5,control,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP494948,,,tu_2.R1.raw.fastq.gz tu_2.R2.raw.fastq.gz,fastq fastq,6933313282.0,22957991.0,tu 2.R1.raw.fastq.gz,0:151 1:151,A:1895897966;C:1562896362;G:1633152399;T:1841286721;N:79834,151,151,,,1895897966,1562896362,1633152399,1841286721,79834,SRX23936570,SRS20740255,SRA1823374,Hunan Normal University|Hunan Normal University,Hunan Normal University,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2024-03-13,Undetermined,Undetermined,Trunk,Surface Structure
30704,SRR28328138,SRX23936569,SRS20740255,SRP494948,PRJNA1086823,Danio rerio Raw sequence reads,PRJNA1086823,Whole Genome Sequencing,Study the effects on the body when this gene is lost,,,Study the effects on the body when this gene is lost,Model organism or animal sample from Danio rerio,tu ,,strain:FISH|age:2|collection date:2023 02 28|geo loc name:missing|sex:missing|tissue:missing|biomaterial provider:missing|BioSampleModel:Model organism or animal,,,,,,,,,SampleD,4,4,control,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP494948,,,tu_1.R1.raw.fastq.gz tu_1.R2.raw.fastq.gz,fastq fastq,6953463930.0,23024715.0,tu 1.R1.raw.fastq.gz,0:151 1:151,A:1914281996;C:1558685345;G:1630355775;T:1850061551;N:79263,151,151,,,1914281996,1558685345,1630355775,1850061551,79263,SRX23936569,SRS20740255,SRA1823374,Hunan Normal University|Hunan Normal University,Hunan Normal University,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2024-03-13,Undetermined,Undetermined,Trunk,Surface Structure
30705,SRR28328139,SRX23936568,SRS20740254,SRP494948,PRJNA1086823,Danio rerio Raw sequence reads,PRJNA1086823,Whole Genome Sequencing,Study the effects on the body when this gene is lost,,,Study the effects on the body when this gene is lost,Model organism or animal sample from Danio rerio,myo7aa,,strain:FISH|age:2|collection date:2023 02 28|geo loc name:missing|sex:missing|tissue:missing|BioSampleModel:Model organism or animal,,,,,,,,,SampleC,3,3,treatment,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP494948,,,myo7aa_3.R1.raw.fastq.gz myo7aa_3.R2.raw.fastq.gz,fastq fastq,6793366180.0,22494590.0,myo7aa 3.R1.raw.fastq.gz,0:151 1:151,A:1786353133;C:1602317410;G:1674855786;T:1729822151;N:17700,151,151,,,1786353133,1602317410,1674855786,1729822151,17700,SRX23936568,SRS20740254,SRA1823374,Hunan Normal University|Hunan Normal University,Hunan Normal University,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2024-03-13,Undetermined,Undetermined,Trunk,Surface Structure
30706,SRR28328140,SRX23936567,SRS20740254,SRP494948,PRJNA1086823,Danio rerio Raw sequence reads,PRJNA1086823,Whole Genome Sequencing,Study the effects on the body when this gene is lost,,,Study the effects on the body when this gene is lost,Model organism or animal sample from Danio rerio,myo7aa,,strain:FISH|age:2|collection date:2023 02 28|geo loc name:missing|sex:missing|tissue:missing|BioSampleModel:Model organism or animal,,,,,,,,,SampleB,2,2,treatment,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP494948,,,myo7aa_2.R1.raw.fastq.gz myo7aa_2.R2.raw.fastq.gz,fastq fastq,6762797438.0,22393369.0,myo7aa 2.R1.raw.fastq.gz,0:151 1:151,A:1816704062;C:1557768239;G:1627373716;T:1760926609;N:24812,151,151,,,1816704062,1557768239,1627373716,1760926609,24812,SRX23936567,SRS20740254,SRA1823374,Hunan Normal University|Hunan Normal University,Hunan Normal University,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2024-03-13,Undetermined,Undetermined,Trunk,Surface Structure
30707,SRR28328141,SRX23936566,SRS20740254,SRP494948,PRJNA1086823,Danio rerio Raw sequence reads,PRJNA1086823,Whole Genome Sequencing,Study the effects on the body when this gene is lost,,,Study the effects on the body when this gene is lost,Model organism or animal sample from Danio rerio,myo7aa,,strain:FISH|age:2|collection date:2023 02 28|geo loc name:missing|sex:missing|tissue:missing|BioSampleModel:Model organism or animal,,,,,,,,,SampleA,1,1,treatment,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP494948,,,myo7aa_1.R1.raw.fastq.gz myo7aa_1.R2.raw.fastq.gz,fastq fastq,6605710628.0,21873214.0,myo7aa 1.R1.raw.fastq.gz,0:151 1:151,A:1728796843;C:1565920605;G:1629477870;T:1681497978;N:17332,151,151,,,1728796843,1565920605,1629477870,1681497978,17332,SRX23936566,SRS20740254,SRA1823374,Hunan Normal University|Hunan Normal University,Hunan Normal University,,,,,,,,,,,,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2024-03-13,Undetermined,Undetermined,Trunk,Surface Structure
32476,SRR29270149,SRX24787634,SRS21505104,SRP511487,PRJNA1119569,RNA seq of zebrafish foxl2l mutant,PRJNA1119569,Other,Bulk seq of zebrafish foxl2l mutant at 15 dpf and 20 dpf. Each time point contain 3 heterozygous and 3 homozygous.,,,,,foxl2l Mut 20 1,,strain:AB|age:20|collection date:2023 06 10|geo loc name:China|sex:hermaphrodite|tissue:gonad|BioSampleModel:Model organism or animal,,,,,,,,,foxl2l Mut 20 1,E10,E10,50 ng of RNA was used to prepare VAHTS RNA seq Library using Universal V6 RNA seq Library Prep Kit for Illumina Vazeme  NR604 01,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,NextSeq 500,,SRP511487,,,foxl2l_Mut-20-1_S162_R1.fastq.gz foxl2l_Mut-20-1_S162_R2.fastq.gz,fastq fastq,8940963680.0,29605840.0,foxl2l Mut 20 1 S162 R1.fastq.gz,0:151 1:151,A:2232167098;C:2229744850;G:2271326718;T:2207692629;N:32385,151,151,,,2232167098,2229744850,2271326718,2207692629,32385,SRX24787634,SRS21505104,SRA1887976,"Institute of Hydrobiology, Chinese Academy of Sciences|Center for Fish Biology and Fishery Biotechnology","Institute of Hydrobiology, Chinese Academy of Sciences",,,,,,,,,,,,B,B,biological fallback assumption,illumina,nextseq,unknown,random_priming,unknown,bulk,bulk,bulk,,China,2024-06-03,Undetermined,Undetermined,Gonad,Reproductive System
32477,SRR29270150,SRX24787633,SRS21505103,SRP511487,PRJNA1119569,RNA seq of zebrafish foxl2l mutant,PRJNA1119569,Other,Bulk seq of zebrafish foxl2l mutant at 15 dpf and 20 dpf. Each time point contain 3 heterozygous and 3 homozygous.,,,,,foxl2l Het 20 3,,strain:AB|age:20|collection date:2023 06 09|geo loc name:China|sex:hermaphrodite|tissue:gonad|BioSampleModel:Model organism or animal,,,,,,,,,foxl2l Het 20 3,E9,E9,50 ng of RNA was used to prepare VAHTS RNA seq Library using Universal V6 RNA seq Library Prep Kit for Illumina Vazeme  NR604 01,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,NextSeq 500,,SRP511487,,,foxl2l_Het-20-3_S161_R1.fastq.gz foxl2l_Het-20-3_S161_R2.fastq.gz,fastq fastq,7038409282.0,23305991.0,foxl2l Het 20 3 S161 R1.fastq.gz,0:151 1:151,A:1766863186;C:1740008639;G:1787471686;T:1744039429;N:26342,151,151,,,1766863186,1740008639,1787471686,1744039429,26342,SRX24787633,SRS21505103,SRA1887976,"Institute of Hydrobiology, Chinese Academy of Sciences|Center for Fish Biology and Fishery Biotechnology","Institute of Hydrobiology, Chinese Academy of Sciences",,,,,,,,,,,,B,B,biological fallback assumption,illumina,nextseq,unknown,random_priming,unknown,bulk,bulk,bulk,,China,2024-06-03,Undetermined,Undetermined,Gonad,Reproductive System
32478,SRR29270151,SRX24787632,SRS21505102,SRP511487,PRJNA1119569,RNA seq of zebrafish foxl2l mutant,PRJNA1119569,Other,Bulk seq of zebrafish foxl2l mutant at 15 dpf and 20 dpf. Each time point contain 3 heterozygous and 3 homozygous.,,,,,foxl2l Het 20 2,,strain:AB|age:20|collection date:2023 06 08|geo loc name:China|sex:hermaphrodite|tissue:gonad|BioSampleModel:Model organism or animal,,,,,,,,,foxl2l Het 20 2,E8,E8,50 ng of RNA was used to prepare VAHTS RNA seq Library using Universal V6 RNA seq Library Prep Kit for Illumina Vazeme  NR604 01,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,NextSeq 500,,SRP511487,,,foxl2l_Het-20-2_S160_R1.fastq.gz foxl2l_Het-20-2_S160_R2.fastq.gz,fastq fastq,6772505832.0,22425516.0,foxl2l Het 20 2 S160 R1.fastq.gz,0:151 1:151,A:1704124986;C:1673138074;G:1713003931;T:1682214009;N:24832,151,151,,,1704124986,1673138074,1713003931,1682214009,24832,SRX24787632,SRS21505102,SRA1887976,"Institute of Hydrobiology, Chinese Academy of Sciences|Center for Fish Biology and Fishery Biotechnology","Institute of Hydrobiology, Chinese Academy of Sciences",,,,,,,,,,,,B,B,biological fallback assumption,illumina,nextseq,unknown,random_priming,unknown,bulk,bulk,bulk,,China,2024-06-03,Undetermined,Undetermined,Gonad,Reproductive System
32479,SRR29270152,SRX24787631,SRS21505101,SRP511487,PRJNA1119569,RNA seq of zebrafish foxl2l mutant,PRJNA1119569,Other,Bulk seq of zebrafish foxl2l mutant at 15 dpf and 20 dpf. Each time point contain 3 heterozygous and 3 homozygous.,,,,,foxl2l Het 20 1,,strain:AB|age:20|collection date:2023 06 07|geo loc name:China|sex:hermaphrodite|tissue:gonad|BioSampleModel:Model organism or animal,,,,,,,,,foxl2l Het 20 1,E7,E7,50 ng of RNA was used to prepare VAHTS RNA seq Library using Universal V6 RNA seq Library Prep Kit for Illumina Vazeme  NR604 01,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,NextSeq 500,,SRP511487,,,foxl2l_Het-20-1_S159_R1.fastq.gz foxl2l_Het-20-1_S159_R2.fastq.gz,fastq fastq,11685740812.0,38694506.0,foxl2l Het 20 1 S159 R1.fastq.gz,0:151 1:151,A:2939618668;C:2888861085;G:2958173208;T:2899044704;N:43147,151,151,,,2939618668,2888861085,2958173208,2899044704,43147,SRX24787631,SRS21505101,SRA1887976,"Institute of Hydrobiology, Chinese Academy of Sciences|Center for Fish Biology and Fishery Biotechnology","Institute of Hydrobiology, Chinese Academy of Sciences",,,,,,,,,,,,B,B,biological fallback assumption,illumina,nextseq,unknown,random_priming,unknown,bulk,bulk,bulk,,China,2024-06-03,Undetermined,Undetermined,Gonad,Reproductive System
32480,SRR29270153,SRX24787630,SRS21505100,SRP511487,PRJNA1119569,RNA seq of zebrafish foxl2l mutant,PRJNA1119569,Other,Bulk seq of zebrafish foxl2l mutant at 15 dpf and 20 dpf. Each time point contain 3 heterozygous and 3 homozygous.,,,,,foxl2l Mut 15 3,,strain:AB|age:15|collection date:2023 06 06|geo loc name:China|sex:hermaphrodite|tissue:gonad|BioSampleModel:Model organism or animal,,,,,,,,,foxl2l Mut 15 3,E6,E6,50 ng of RNA was used to prepare VAHTS RNA seq Library using Universal V6 RNA seq Library Prep Kit for Illumina Vazeme  NR604 01,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,NextSeq 500,,SRP511487,,,foxl2l_Mut-15-3_S158_R1.fastq.gz foxl2l_Mut-15-3_S158_R2.fastq.gz,fastq fastq,9503789604.0,31469502.0,foxl2l Mut 15 3 S158 R1.fastq.gz,0:151 1:151,A:2393052443;C:2340958111;G:2411502428;T:2358240313;N:36309,151,151,,,2393052443,2340958111,2411502428,2358240313,36309,SRX24787630,SRS21505100,SRA1887976,"Institute of Hydrobiology, Chinese Academy of Sciences|Center for Fish Biology and Fishery Biotechnology","Institute of Hydrobiology, Chinese Academy of Sciences",,,,,,,,,,,,B,B,biological fallback assumption,illumina,nextseq,unknown,random_priming,unknown,bulk,bulk,bulk,,China,2024-06-03,Undetermined,Undetermined,Gonad,Reproductive System
32481,SRR29270154,SRX24787629,SRS21505099,SRP511487,PRJNA1119569,RNA seq of zebrafish foxl2l mutant,PRJNA1119569,Other,Bulk seq of zebrafish foxl2l mutant at 15 dpf and 20 dpf. Each time point contain 3 heterozygous and 3 homozygous.,,,,,foxl2l Mut 15 2,,strain:AB|age:15|collection date:2023 06 05|geo loc name:China|sex:hermaphrodite|tissue:gonad|BioSampleModel:Model organism or animal,,,,,,,,,foxl2l Mut 15 2,E5,E5,50 ng of RNA was used to prepare VAHTS RNA seq Library using Universal V6 RNA seq Library Prep Kit for Illumina Vazeme  NR604 01,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,NextSeq 500,,SRP511487,,,foxl2l_Mut-15-2_S157_R1.fastq.gz foxl2l_Mut-15-2_S157_R2.fastq.gz,fastq fastq,7416837026.0,24559063.0,foxl2l Mut 15 2 S157 R1.fastq.gz,0:151 1:151,A:1865711045;C:1830489703;G:1881612508;T:1838995980;N:27790,151,151,,,1865711045,1830489703,1881612508,1838995980,27790,SRX24787629,SRS21505099,SRA1887976,"Institute of Hydrobiology, Chinese Academy of Sciences|Center for Fish Biology and Fishery Biotechnology","Institute of Hydrobiology, Chinese Academy of Sciences",,,,,,,,,,,,B,B,biological fallback assumption,illumina,nextseq,unknown,random_priming,unknown,bulk,bulk,bulk,,China,2024-06-03,Undetermined,Undetermined,Gonad,Reproductive System
32482,SRR29270155,SRX24787628,SRS21505098,SRP511487,PRJNA1119569,RNA seq of zebrafish foxl2l mutant,PRJNA1119569,Other,Bulk seq of zebrafish foxl2l mutant at 15 dpf and 20 dpf. Each time point contain 3 heterozygous and 3 homozygous.,,,,,foxl2l Mut 15 1,,strain:AB|age:15|collection date:2023 06 04|geo loc name:China|sex:hermaphrodite|tissue:gonad|BioSampleModel:Model organism or animal,,,,,,,,,foxl2l Mut 15 1,E4,E4,50 ng of RNA was used to prepare VAHTS RNA seq Library using Universal V6 RNA seq Library Prep Kit for Illumina Vazeme  NR604 01,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,NextSeq 500,,SRP511487,,,foxl2l_Mut-15-1_S156_R1.fastq.gz foxl2l_Mut-15-1_S156_R2.fastq.gz,fastq fastq,7092721868.0,23485834.0,foxl2l Mut 15 1 S156 R1.fastq.gz,0:151 1:151,A:1764166761;C:1770534219;G:1820397492;T:1737597123;N:26273,151,151,,,1764166761,1770534219,1820397492,1737597123,26273,SRX24787628,SRS21505098,SRA1887976,"Institute of Hydrobiology, Chinese Academy of Sciences|Center for Fish Biology and Fishery Biotechnology","Institute of Hydrobiology, Chinese Academy of Sciences",,,,,,,,,,,,B,B,biological fallback assumption,illumina,nextseq,unknown,random_priming,unknown,bulk,bulk,bulk,,China,2024-06-03,Undetermined,Undetermined,Gonad,Reproductive System
32483,SRR29270156,SRX24787627,SRS21505097,SRP511487,PRJNA1119569,RNA seq of zebrafish foxl2l mutant,PRJNA1119569,Other,Bulk seq of zebrafish foxl2l mutant at 15 dpf and 20 dpf. Each time point contain 3 heterozygous and 3 homozygous.,,,,,foxl2l Het 15 3,,strain:AB|age:15|collection date:2023 06 03|geo loc name:China|sex:hermaphrodite|tissue:gonad|BioSampleModel:Model organism or animal,,,,,,,,,foxl2l Het 15 3,E3,E3,50 ng of RNA was used to prepare VAHTS RNA seq Library using Universal V6 RNA seq Library Prep Kit for Illumina Vazeme  NR604 01,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,NextSeq 500,,SRP511487,,,foxl2l_Het-15-3_S155_R1.fastq.gz foxl2l_Het-15-3_S155_R2.fastq.gz,fastq fastq,8083606820.0,26766910.0,foxl2l Het 15 3 S155 R1.fastq.gz,0:151 1:151,A:2028557443;C:2001113164;G:2050610840;T:2003295953;N:29420,151,151,,,2028557443,2001113164,2050610840,2003295953,29420,SRX24787627,SRS21505097,SRA1887976,"Institute of Hydrobiology, Chinese Academy of Sciences|Center for Fish Biology and Fishery Biotechnology","Institute of Hydrobiology, Chinese Academy of Sciences",,,,,,,,,,,,B,B,biological fallback assumption,illumina,nextseq,unknown,random_priming,unknown,bulk,bulk,bulk,,China,2024-06-03,Undetermined,Undetermined,Gonad,Reproductive System
32484,SRR29270157,SRX24787626,SRS21505096,SRP511487,PRJNA1119569,RNA seq of zebrafish foxl2l mutant,PRJNA1119569,Other,Bulk seq of zebrafish foxl2l mutant at 15 dpf and 20 dpf. Each time point contain 3 heterozygous and 3 homozygous.,,,,,foxl2l Mut 20 3,,strain:AB|age:20|collection date:2023 06 12|geo loc name:China|sex:hermaphrodite|tissue:gonad|BioSampleModel:Model organism or animal,,,,,,,,,foxl2l Mut 20 3,E12,E12,50 ng of RNA was used to prepare VAHTS RNA seq Library using Universal V6 RNA seq Library Prep Kit for Illumina Vazeme  NR604 01,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,NextSeq 500,,SRP511487,,,foxl2l_Mut-20-3_S164_R1.fastq.gz foxl2l_Mut-20-3_S164_R2.fastq.gz,fastq fastq,7474861796.0,24751198.0,foxl2l Mut 20 3 S164 R1.fastq.gz,0:151 1:151,A:1878881650;C:1849512621;G:1891142525;T:1855296720;N:28280,151,151,,,1878881650,1849512621,1891142525,1855296720,28280,SRX24787626,SRS21505096,SRA1887976,"Institute of Hydrobiology, Chinese Academy of Sciences|Center for Fish Biology and Fishery Biotechnology","Institute of Hydrobiology, Chinese Academy of Sciences",,,,,,,,,,,,B,B,biological fallback assumption,illumina,nextseq,unknown,random_priming,unknown,bulk,bulk,bulk,,China,2024-06-03,Undetermined,Undetermined,Gonad,Reproductive System
32485,SRR29270158,SRX24787625,SRS21505095,SRP511487,PRJNA1119569,RNA seq of zebrafish foxl2l mutant,PRJNA1119569,Other,Bulk seq of zebrafish foxl2l mutant at 15 dpf and 20 dpf. Each time point contain 3 heterozygous and 3 homozygous.,,,,,foxl2l Mut 20 2,,strain:AB|age:20|collection date:2023 06 11|geo loc name:China|sex:hermaphrodite|tissue:gonad|BioSampleModel:Model organism or animal,,,,,,,,,foxl2l Mut 20 2,E11,E11,50 ng of RNA was used to prepare VAHTS RNA seq Library using Universal V6 RNA seq Library Prep Kit for Illumina Vazeme  NR604 01,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,NextSeq 500,,SRP511487,,,foxl2l_Mut-20-2_S163_R1.fastq.gz foxl2l_Mut-20-2_S163_R2.fastq.gz,fastq fastq,8203704066.0,27164583.0,foxl2l Mut 20 2 S163 R1.fastq.gz,0:151 1:151,A:2061693689;C:2030126562;G:2072980952;T:2038873198;N:29665,151,151,,,2061693689,2030126562,2072980952,2038873198,29665,SRX24787625,SRS21505095,SRA1887976,"Institute of Hydrobiology, Chinese Academy of Sciences|Center for Fish Biology and Fishery Biotechnology","Institute of Hydrobiology, Chinese Academy of Sciences",,,,,,,,,,,,B,B,biological fallback assumption,illumina,nextseq,unknown,random_priming,unknown,bulk,bulk,bulk,,China,2024-06-03,Undetermined,Undetermined,Gonad,Reproductive System
32486,SRR29270159,SRX24787624,SRS21505094,SRP511487,PRJNA1119569,RNA seq of zebrafish foxl2l mutant,PRJNA1119569,Other,Bulk seq of zebrafish foxl2l mutant at 15 dpf and 20 dpf. Each time point contain 3 heterozygous and 3 homozygous.,,,,,foxl2l Het 15 2,,strain:AB|age:15|collection date:2023 06 02|geo loc name:China|sex:hermaphrodite|tissue:gonad|BioSampleModel:Model organism or animal,,,,,,,,,foxl2l Het 15 2,E2,E2,50 ng of RNA was used to prepare VAHTS RNA seq Library using Universal V6 RNA seq Library Prep Kit for Illumina Vazeme  NR604 01,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,NextSeq 500,,SRP511487,,,foxl2l_Het-15-2_S154_R1.fastq.gz foxl2l_Het-15-2_S154_R2.fastq.gz,fastq fastq,7868286860.0,26053930.0,foxl2l Het 15 2 S154 R1.fastq.gz,0:151 1:151,A:1972210357;C:1946891859;G:2008091153;T:1941064817;N:28674,151,151,,,1972210357,1946891859,2008091153,1941064817,28674,SRX24787624,SRS21505094,SRA1887976,"Institute of Hydrobiology, Chinese Academy of Sciences|Center for Fish Biology and Fishery Biotechnology","Institute of Hydrobiology, Chinese Academy of Sciences",,,,,,,,,,,,B,B,biological fallback assumption,illumina,nextseq,unknown,random_priming,unknown,bulk,bulk,bulk,,China,2024-06-03,Undetermined,Undetermined,Gonad,Reproductive System
32487,SRR29270160,SRX24787623,SRS21505093,SRP511487,PRJNA1119569,RNA seq of zebrafish foxl2l mutant,PRJNA1119569,Other,Bulk seq of zebrafish foxl2l mutant at 15 dpf and 20 dpf. Each time point contain 3 heterozygous and 3 homozygous.,,,,,foxl2l Het 15 1,,strain:AB|age:15|collection date:2023 06 01|geo loc name:China|sex:hermaphrodite|tissue:gonad|BioSampleModel:Model organism or animal,,,,,,,,,foxl2l Het 15 1,E1,E1,50 ng of RNA was used to prepare VAHTS RNA seq Library using Universal V6 RNA seq Library Prep Kit for Illumina Vazeme  NR604 01,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,NextSeq 500,,SRP511487,,,foxl2l_Het-15-1_S153_R1.fastq.gz foxl2l_Het-15-1_S153_R2.fastq.gz,fastq fastq,7117391946.0,23567523.0,foxl2l Het 15 1 S153 R1.fastq.gz,0:151 1:151,A:1795668098;C:1752824783;G:1793720116;T:1775153584;N:25365,151,151,,,1795668098,1752824783,1793720116,1775153584,25365,SRX24787623,SRS21505093,SRA1887976,"Institute of Hydrobiology, Chinese Academy of Sciences|Center for Fish Biology and Fishery Biotechnology","Institute of Hydrobiology, Chinese Academy of Sciences",,,,,,,,,,,,B,B,biological fallback assumption,illumina,nextseq,unknown,random_priming,unknown,bulk,bulk,bulk,,China,2024-06-03,Undetermined,Undetermined,Gonad,Reproductive System
48115,SRR7252252,SRX4156979,SRS3369496,SRP149646,PRJNA453111,Danio rerio Transcriptome or Gene expression,PRJNA453111,Other,The effect of oligosaccharides on zebrafish genes,,,,Model organism or animal sample from Danio rerio 02,zebrafish 2,,breed:zebrafish|dev stage:sexual maturity|sex:not determined|tissue:the whole fish|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,T02,T02,Liver of FOS exposure,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,Illumina HiSeq 2000,,SRP149646,,,Zebrafish_G017-T02_good_2.fq Zebrafish_G017-T02_good_1.fq,fastq fastq,14376728630.0,48016590.0,Zebrafish G017 T02 good 2.fq,0:149.71 1:149.71,A:3691193836;C:3492856068;G:3505759208;T:3686065491;N:854027,149,149,,,3691193836,3492856068,3505759208,3686065491,854027,SRX4156979,SRS3369496,SRA714653,Henan University of Scientific and Technology|College of Animal Science and Technology,Henan University of Scientific and Technology,2,0.91739,0.92142,0.02484,0.02505,0.6873,0.69402,0.47704,0.47922,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2018-06-04,Undetermined,Undetermined,Whole Organism,All anatomical structures
48116,SRR7252253,SRX4156978,SRS3369495,SRP149646,PRJNA453111,Danio rerio Transcriptome or Gene expression,PRJNA453111,Other,The effect of oligosaccharides on zebrafish genes,,,,Model organism or animal sample from Danio rerio,zebrafish,,breed:zebrafish|dev stage:sexual maturity|sex:not determined|tissue:the whole fish|BioSampleModel:Model organism or animal,,,,,,,,,Danio rerio Raw sequence reads,T01,T01,Liver of control,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,Illumina HiSeq 2000,,SRP149646,,,Zebrafish_G017-T01_good_1.fq Zebrafish_G017-T01_good_2.fq,fastq fastq,14807578386.0,49468651.0,Zebrafish G017 T01 good 2.fq,0:149.67 1:149.67,A:3802207986;C:3595045362;G:3614407174;T:3795034464;N:883400,149,149,,,3802207986,3595045362,3614407174,3795034464,883400,SRX4156978,SRS3369495,SRA714653,Henan University of Scientific and Technology|College of Animal Science and Technology,Henan University of Scientific and Technology,2,0.92048,0.92419,0.03167,0.03195,0.67105,0.67489,0.43695,0.44187,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2018-06-04,Undetermined,Undetermined,Whole Organism,All anatomical structures
49815,SRR8987978,SRX5767074,SRS4701368,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,24h 6,sample exposed to microcystin for xxxh   replicate #6,,ecotype:not applicable|dev stage:not applicable|sex:not applicable|tissue:ZFL cell line|cell line:ZFL cell line|treatment:sample exposed to microcystin for xxxh   replicate #6|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to  microcystin for xxxh   replicate #6,24h 3,24h 3,Sequencing libraries were generated using the TruSeq RNA Sample Preparation Kit Illumina according to manufacturers instructions. Three micrograms of total RNA were used as initial material for library preparation. Briefly  mRNA was purified using poly T oligo attached magnetic beads. Fragmentation of mRNA was conducted using divalent cations under elevated temperature in the Illumina proprietary fragmentation buffer. First strand cDNA was synthesized using random oligonucleotides and SuperScript II. Second strand cDNA was subsequently synthesized using DNA Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE adapter oligonucleotides were ligated and the library fragments were purified using the AMPure XP system Beckman Coulter. DNA fragments with ligated adaptors on both ends were selectively enriched using Illumina PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP system and quantified using the Agilent high sensitivity DNA assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,24h3_clean_R2.fq.gz 24h3_clean_R1.fq.gz,fastq fastq,6275458528.0,20779664.0,24h3 clean R1.fq.gz,0:151 1:151,A:1685303886;C:1437291030;G:1447147160;T:1702856463;N:2859989,151,151,,,1685303886,1437291030,1447147160,1702856463,2859989,SRX5767074,SRS4701368,SRA880742,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.92675,0.92679,0.13415,0.13431,0.73945,0.74213,0.50477,0.50726,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-04-29,Undetermined,Undetermined,Cell Line,Cell Line
49816,SRR8987979,SRX5767073,SRS4701367,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,24h 4,sample exposed to microcystin for xxxh   replicate #4,,ecotype:not applicable|dev stage:not applicable|sex:not applicable|tissue:ZFL cell line|cell line:ZFL cell line|treatment:sample exposed to microcystin for xxxh   replicate #4|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to  microcystin for xxxh   replicate #4,24h 1,24h 1,Sequencing libraries were generated using the TruSeq RNA Sample Preparation Kit Illumina according to manufacturers instructions. Three micrograms of total RNA were used as initial material for library preparation. Briefly  mRNA was purified using poly T oligo attached magnetic beads. Fragmentation of mRNA was conducted using divalent cations under elevated temperature in the Illumina proprietary fragmentation buffer. First strand cDNA was synthesized using random oligonucleotides and SuperScript II. Second strand cDNA was subsequently synthesized using DNA Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE adapter oligonucleotides were ligated and the library fragments were purified using the AMPure XP system Beckman Coulter. DNA fragments with ligated adaptors on both ends were selectively enriched using Illumina PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP system and quantified using the Agilent high sensitivity DNA assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,24h1_clean_R1.fq.gz 24h1_clean_R2.fq.gz,fastq fastq,6373552356.0,21104478.0,24h1 clean R1.fq.gz,0:151 1:151,A:1712827186;C:1458408871;G:1470508604;T:1728973011;N:2834684,151,151,,,1712827186,1458408871,1470508604,1728973011,2834684,SRX5767073,SRS4701367,SRA880742,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.9248,0.92582,0.13207,0.13239,0.73839,0.74038,0.49865,0.50119,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-04-29,Undetermined,Undetermined,Cell Line,Cell Line
49817,SRR8987980,SRX5767072,SRS4701366,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,24h 5,sample exposed to microcystin for xxxh   replicate #5,,ecotype:not applicable|dev stage:not applicable|sex:not applicable|tissue:ZFL cell line|cell line:ZFL cell line|treatment:sample exposed to microcystin for xxxh   replicate #5|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to  microcystin for xxxh   replicate #5,24h 2,24h 2,Sequencing libraries were generated using the TruSeq RNA Sample Preparation Kit Illumina according to manufacturers instructions. Three micrograms of total RNA were used as initial material for library preparation. Briefly  mRNA was purified using poly T oligo attached magnetic beads. Fragmentation of mRNA was conducted using divalent cations under elevated temperature in the Illumina proprietary fragmentation buffer. First strand cDNA was synthesized using random oligonucleotides and SuperScript II. Second strand cDNA was subsequently synthesized using DNA Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE adapter oligonucleotides were ligated and the library fragments were purified using the AMPure XP system Beckman Coulter. DNA fragments with ligated adaptors on both ends were selectively enriched using Illumina PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP system and quantified using the Agilent high sensitivity DNA assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,24h2_clean_R2.fq.gz 24h2_clean_R1.fq.gz,fastq fastq,6303822066.0,20873583.0,24h2 clean R1.fq.gz,0:151 1:151,A:1694366688;C:1441733171;G:1453717629;T:1711017538;N:2987040,151,151,,,1694366688,1441733171,1453717629,1711017538,2987040,SRX5767072,SRS4701366,SRA880742,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.9264,0.92591,0.13121,0.13204,0.7385,0.74227,0.50323,0.49357,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-04-29,Undetermined,Undetermined,Cell Line,Cell Line
49818,SRR8983315,SRX5762615,SRS4697269,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,12h 5,sample exposed to microcystin for xxxh   replicate #5,,ecotype:not applicable|dev stage:not applicable|sex:not applicable|tissue:ZFL cell line|cell line:ZFL cell line|treatment:sample exposed to microcystin for xxxh   replicate #5|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to  microcystin for xxxh   replicate #5,12h 5,12h 5,Sequencing libraries were generated using the TruSeq RNA Sample Preparation Kit Illumina according to manufacturers instructions. Three micrograms of total RNA were used as initial material for library preparation. Briefly  mRNA was purified using poly T oligo attached magnetic beads. Fragmentation of mRNA was conducted using divalent cations under elevated temperature in the Illumina proprietary fragmentation buffer. First strand cDNA was synthesized using random oligonucleotides and SuperScript II. Second strand cDNA was subsequently synthesized using DNA Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE adapter oligonucleotides were ligated and the library fragments were purified using the AMPure XP system Beckman Coulter. DNA fragments with ligated adaptors on both ends were selectively enriched using Illumina PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP system and quantified using the Agilent high sensitivity DNA assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,12h2_clean_R1.fq.gz 12h2_clean_R2.fq.gz,fastq fastq,5637564766.0,18667433.0,12h2 clean R1.fq.gz,0:151 1:151,A:1484457309;C:1319928521;G:1331480348;T:1498547286;N:3151302,151,151,,,1484457309,1319928521,1331480348,1498547286,3151302,SRX5762615,SRS4697269,SRA880316,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.93974,0.93913,0.09518,0.09588,0.74982,0.75331,0.49858,0.49712,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-04-29,Undetermined,Undetermined,Cell Line,Cell Line
49819,SRR8983316,SRX5762614,SRS4697268,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,12h 4,sample exposed to microcystin for xxxh   replicate #4,,ecotype:not applicable|dev stage:not applicable|sex:not applicable|tissue:ZFL cell line|cell line:ZFL cell line|treatment:sample exposed to microcystin for xxxh   replicate #4|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to  microcystin for xxxh   replicate #4,12h 4,12h 4,Sequencing libraries were generated using the TruSeq RNA Sample Preparation Kit Illumina according to manufacturers instructions. Three micrograms of total RNA were used as initial material for library preparation. Briefly  mRNA was purified using poly T oligo attached magnetic beads. Fragmentation of mRNA was conducted using divalent cations under elevated temperature in the Illumina proprietary fragmentation buffer. First strand cDNA was synthesized using random oligonucleotides and SuperScript II. Second strand cDNA was subsequently synthesized using DNA Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE adapter oligonucleotides were ligated and the library fragments were purified using the AMPure XP system Beckman Coulter. DNA fragments with ligated adaptors on both ends were selectively enriched using Illumina PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP system and quantified using the Agilent high sensitivity DNA assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,12h1_clean_R2.fq.gz 12h1_clean_R1.fq.gz,fastq fastq,5742037438.0,19013369.0,12h1 clean R1.fq.gz,0:151 1:151,A:1505967171;C:1350499061;G:1361100937;T:1521258216;N:3212053,151,151,,,1505967171,1350499061,1361100937,1521258216,3212053,SRX5762614,SRS4697268,SRA880316,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.9408,0.93974,0.09145,0.09155,0.75146,0.75501,0.49821,0.49267,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-04-29,Undetermined,Undetermined,Cell Line,Cell Line
49820,SRR8983317,SRX5762613,SRS4697267,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,12h 6,sample exposed to microcystin for xxxh   replicate #6,,ecotype:not applicable|dev stage:not applicable|sex:not applicable|tissue:ZFL cell line|cell line:ZFL cell line|treatment:sample exposed to microcystin for xxxh   replicate #6|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to  microcystin for xxxh   replicate #6,12h 6,12h 6,Sequencing libraries were generated using the TruSeq RNA Sample Preparation Kit Illumina according to manufacturers instructions. Three micrograms of total RNA were used as initial material for library preparation. Briefly  mRNA was purified using poly T oligo attached magnetic beads. Fragmentation of mRNA was conducted using divalent cations under elevated temperature in the Illumina proprietary fragmentation buffer. First strand cDNA was synthesized using random oligonucleotides and SuperScript II. Second strand cDNA was subsequently synthesized using DNA Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE adapter oligonucleotides were ligated and the library fragments were purified using the AMPure XP system Beckman Coulter. DNA fragments with ligated adaptors on both ends were selectively enriched using Illumina PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP system and quantified using the Agilent high sensitivity DNA assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,12h3_clean_R2.fq.gz 12h3_clean_R1.fq.gz,fastq fastq,5456135246.0,18066673.0,12h3 clean R1.fq.gz,0:151 1:151,A:1445780220;C:1268483624;G:1278423072;T:1460394475;N:3053855,151,151,,,1445780220,1268483624,1278423072,1460394475,3053855,SRX5762613,SRS4697267,SRA880316,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.93632,0.93624,0.10093,0.1015,0.7499,0.75367,0.50485,0.50164,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-04-29,Undetermined,Undetermined,Cell Line,Cell Line
49821,SRR8982954,SRX5762254,SRS4696966,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,6h 6,sample exposed to microcystin for xxxh   replicate #6,,ecotype:not applicable|dev stage:not applicable|sex:not applicable|tissue:ZFL cell line|cell line:ZFL cell line|treatment:sample exposed to microcystin for xxxh   replicate #6|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to  microcystin for xxxh   replicate #6,6h 6,6h 6,Sequencing libraries were generated using the TruSeq RNA Sample Preparation Kit Illumina according to manufacturers instructions. Three micrograms of total RNA were used as initial material for library preparation. Briefly  mRNA was purified using poly T oligo attached magnetic beads. Fragmentation of mRNA was conducted using divalent cations under elevated temperature in the Illumina proprietary fragmentation buffer. First strand cDNA was synthesized using random oligonucleotides and SuperScript II. Second strand cDNA was subsequently synthesized using DNA Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE adapter oligonucleotides were ligated and the library fragments were purified using the AMPure XP system Beckman Coulter. DNA fragments with ligated adaptors on both ends were selectively enriched using Illumina PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP system and quantified using the Agilent high sensitivity DNA assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,6h3_clean_R1.fq.gz 6h3_clean_R2.fq.gz,fastq fastq,7939056332.0,26288266.0,6h3 clean R1.fq.gz,0:151 1:151,A:2043932346;C:1908038526;G:1925388013;T:2058202469;N:3494978,151,151,,,2043932346,1908038526,1925388013,2058202469,3494978,SRX5762254,SRS4696966,SRA880287,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.94661,0.94661,0.07559,0.07638,0.76134,0.76394,0.49736,0.50336,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-04-29,Undetermined,Undetermined,Cell Line,Cell Line
49822,SRR8982955,SRX5762253,SRS4696965,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,6h 5,sample exposed to microcystin for xxxh   replicate #5,,ecotype:not applicable|dev stage:not applicable|sex:not applicable|tissue:ZFL cell line|cell line:ZFL cell line|treatment:sample exposed to microcystin for xxxh   replicate #5|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to  microcystin for xxxh   replicate #5,6h 5,6h 5,Sequencing libraries were generated using the TruSeq RNA Sample Preparation Kit Illumina according to manufacturers instructions. Three micrograms of total RNA were used as initial material for library preparation. Briefly  mRNA was purified using poly T oligo attached magnetic beads. Fragmentation of mRNA was conducted using divalent cations under elevated temperature in the Illumina proprietary fragmentation buffer. First strand cDNA was synthesized using random oligonucleotides and SuperScript II. Second strand cDNA was subsequently synthesized using DNA Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE adapter oligonucleotides were ligated and the library fragments were purified using the AMPure XP system Beckman Coulter. DNA fragments with ligated adaptors on both ends were selectively enriched using Illumina PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP system and quantified using the Agilent high sensitivity DNA assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,6h2_clean_R1.fq.gz 6h2_clean_R2.fq.gz,fastq fastq,5431283968.0,17984384.0,6h2 clean R1.fq.gz,0:151 1:151,A:1432960105;C:1269588003;G:1284040697;T:1441657813;N:3037350,151,151,,,1432960105,1269588003,1284040697,1441657813,3037350,SRX5762253,SRS4696965,SRA880287,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.9325,0.93223,0.11537,0.11461,0.7433,0.7457,0.49688,0.50558,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-04-29,Undetermined,Undetermined,Cell Line,Cell Line
49823,SRR8982956,SRX5762252,SRS4696964,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,6h 4,sample exposed to microcystin for xxxh   replicate #4,,ecotype:not applicable|dev stage:not applicable|sex:not applicable|tissue:ZFL cell line|cell line:ZFL cell line|treatment:sample exposed to microcystin for xxxh   replicate #4|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to  microcystin for xxxh   replicate #4,6h 4,6h 4,Sequencing libraries were generated using the TruSeq RNA Sample Preparation Kit Illumina according to manufacturers instructions. Three micrograms of total RNA were used as initial material for library preparation. Briefly  mRNA was purified using poly T oligo attached magnetic beads. Fragmentation of mRNA was conducted using divalent cations under elevated temperature in the Illumina proprietary fragmentation buffer. First strand cDNA was synthesized using random oligonucleotides and SuperScript II. Second strand cDNA was subsequently synthesized using DNA Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE adapter oligonucleotides were ligated and the library fragments were purified using the AMPure XP system Beckman Coulter. DNA fragments with ligated adaptors on both ends were selectively enriched using Illumina PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP system and quantified using the Agilent high sensitivity DNA assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,6h1_clean_R1.fq.gz 6h1_clean_R2.fq.gz,fastq fastq,5561923128.0,18416964.0,6h1 clean R1.fq.gz,0:151 1:151,A:1439698401;C:1327963901;G:1340151064;T:1450995064;N:3114698,151,151,,,1439698401,1327963901,1340151064,1450995064,3114698,SRX5762252,SRS4696964,SRA880287,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.9438,0.94314,0.08661,0.08624,0.75613,0.75858,0.49468,0.47945,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-04-29,Undetermined,Undetermined,Cell Line,Cell Line
49824,SRR8981191,SRX5760491,SRS4695477,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,3h 5,sample exposed to microcystin for xxxh   replicate #5,,ecotype:not applicable|dev stage:not applicable|sex:not applicable|tissue:ZFL cell line|cell line:ZFL cell line|treatment:sample exposed to microcystin for xxxh   replicate #5|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to  microcystin for xxxh   replicate #5,3h 5,3h 5,Sequencing libraries were generated using the TruSeq RNA Sample Preparation Kit Illumina according to manufacturers instructions. Three micrograms of total RNA were used as initial material for library preparation. Briefly  mRNA was purified using poly T oligo attached magnetic beads. Fragmentation of mRNA was conducted using divalent cations under elevated temperature in the Illumina proprietary fragmentation buffer. First strand cDNA was synthesized using random oligonucleotides and SuperScript II. Second strand cDNA was subsequently synthesized using DNA Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE adapter oligonucleotides were ligated and the library fragments were purified using the AMPure XP system Beckman Coulter. DNA fragments with ligated adaptors on both ends were selectively enriched using Illumina PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP system and quantified using the Agilent high sensitivity DNA assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,3h2_clean_R1.fq.gz 3h2_clean_R2.fq.gz,fastq fastq,5426694474.0,17969187.0,3h2 clean R1.fq.gz,0:151 1:151,A:1455679038;C:1243463586;G:1253806438;T:1470703342;N:3042070,151,151,,,1455679038,1243463586,1253806438,1470703342,3042070,SRX5760491,SRS4695477,SRA880231,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.92775,0.9265,0.13003,0.13039,0.74257,0.74679,0.48728,0.50236,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-04-28,Undetermined,Undetermined,Cell Line,Cell Line
49825,SRR8981192,SRX5760490,SRS4695476,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,3h 4,sample exposed to microcystin for xxxh   replicate #4,,ecotype:not applicable|dev stage:not applicable|sex:not applicable|tissue:ZFL cell line|cell line:ZFL cell line|treatment:sample exposed to microcystin for xxxh   replicate #4|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to  microcystin for xxxh   replicate #4,3h 4,3h 4,Sequencing libraries were generated using the TruSeq RNA Sample Preparation Kit Illumina according to manufacturers instructions. Three micrograms of total RNA were used as initial material for library preparation. Briefly  mRNA was purified using poly T oligo attached magnetic beads. Fragmentation of mRNA was conducted using divalent cations under elevated temperature in the Illumina proprietary fragmentation buffer. First strand cDNA was synthesized using random oligonucleotides and SuperScript II. Second strand cDNA was subsequently synthesized using DNA Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE adapter oligonucleotides were ligated and the library fragments were purified using the AMPure XP system Beckman Coulter. DNA fragments with ligated adaptors on both ends were selectively enriched using Illumina PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP system and quantified using the Agilent high sensitivity DNA assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,3h1_clean_R1.fq.gz 3h1_clean_R2.fq.gz,fastq fastq,6381408584.0,21130492.0,3h1 clean R1.fq.gz,0:151 1:151,A:1704493392;C:1471437290;G:1482728107;T:1720014953;N:2734842,151,151,,,1704493392,1471437290,1482728107,1720014953,2734842,SRX5760490,SRS4695476,SRA880231,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.93,0.93014,0.11977,0.12069,0.74434,0.74864,0.49627,0.50428,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-04-28,Undetermined,Undetermined,Cell Line,Cell Line
49826,SRR8981193,SRX5760489,SRS4695475,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,3h 6,sample exposed to microcystin for xxxh   replicate #6,,ecotype:not applicable|dev stage:not applicable|sex:not applicable|tissue:ZFL cell line|cell line:ZFL cell line|treatment:sample exposed to microcystin for xxxh   replicate #6|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to  microcystin for xxxh   replicate #6,3h 6,3h 6,Sequencing libraries were generated using the TruSeq RNA Sample Preparation Kit Illumina according to manufacturers instructions. Three micrograms of total RNA were used as initial material for library preparation. Briefly  mRNA was purified using poly T oligo attached magnetic beads. Fragmentation of mRNA was conducted using divalent cations under elevated temperature in the Illumina proprietary fragmentation buffer. First strand cDNA was synthesized using random oligonucleotides and SuperScript II. Second strand cDNA was subsequently synthesized using DNA Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE adapter oligonucleotides were ligated and the library fragments were purified using the AMPure XP system Beckman Coulter. DNA fragments with ligated adaptors on both ends were selectively enriched using Illumina PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP system and quantified using the Agilent high sensitivity DNA assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,3h3_clean_R1.fq.gz 3h3_clean_R2.fq.gz,fastq fastq,6058080740.0,20059870.0,3h3 clean R1.fq.gz,0:151 1:151,A:1623401423;C:1391994584;G:1400166489;T:1639132542;N:3385702,151,151,,,1623401423,1391994584,1400166489,1639132542,3385702,SRX5760489,SRS4695475,SRA880231,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.93298,0.93201,0.10907,0.10885,0.75059,0.75463,0.50656,0.49273,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-04-28,Undetermined,Undetermined,Cell Line,Cell Line
49827,SRR8961086,SRX5740640,SRS4676161,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,1h 6,sample exposed to microcystin for xxxh   replicate #6,,ecotype:not applicable|dev stage:not applicable|sex:not applicable|tissue:ZFL cell line|cell line:ZFL cell line|treatment:sample exposed to microcystin for xxxh   replicate #6|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to microcystin for xxxh    replicate #6,1h 6,1h 6,Sequencing libraries were generated using the TruSeq RNA Sample Preparation Kit Illumina according to manufacturers instructions. Three micrograms of total RNA were used as initial material for library preparation. Briefly  mRNA was purified using poly T oligo attached magnetic beads. Fragmentation of mRNA was conducted using divalent cations under elevated temperature in the Illumina proprietary fragmentation buffer. First strand cDNA was synthesized using random oligonucleotides and SuperScript II. Second strand cDNA was subsequently synthesized using DNA Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE adapter oligonucleotides were ligated and the library fragments were purified using the AMPure XP system Beckman Coulter. DNA fragments with ligated adaptors on both ends were selectively enriched using Illumina PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP system and quantified using the Agilent high sensitivity DNA assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,1h3_clean_R1.fq.gz 1h3_clean_R2.fq.gz,fastq fastq,6472187368.0,21431084.0,1h3 clean R1.fq.gz,0:151 1:151,A:1780621052;C:1438221849;G:1453983421;T:1796459482;N:2901564,151,151,,,1780621052,1438221849,1453983421,1796459482,2901564,SRX5740640,SRS4676161,SRA879791,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.92158,0.91814,0.14503,0.14358,0.75775,0.75982,0.50094,0.49955,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-04-26,Undetermined,Undetermined,Cell Line,Cell Line
49828,SRR8961087,SRX5740639,SRS4676160,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,1h 4,sample exposed to microcystin for xxxh   replicate #4,,ecotype:not applicable|dev stage:not applicable|sex:not applicable|tissue:ZFL cell line|cell line:ZFL cell line|treatment:sample exposed to microcystin for xxxh   replicate #4|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to  microcystin for xxxh   replicate #4,1h 4,1h 4,Sequencing libraries were generated using the TruSeq RNA Sample Preparation Kit Illumina according to manufacturers instructions. Three micrograms of total RNA were used as initial material for library preparation. Briefly  mRNA was purified using poly T oligo attached magnetic beads. Fragmentation of mRNA was conducted using divalent cations under elevated temperature in the Illumina proprietary fragmentation buffer. First strand cDNA was synthesized using random oligonucleotides and SuperScript II. Second strand cDNA was subsequently synthesized using DNA Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE adapter oligonucleotides were ligated and the library fragments were purified using the AMPure XP system Beckman Coulter. DNA fragments with ligated adaptors on both ends were selectively enriched using Illumina PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP system and quantified using the Agilent high sensitivity DNA assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,1h1_clean_R1.fq.gz 1h1_clean_R2.fq.gz,fastq fastq,6177620796.0,20455698.0,1h1 clean R1.fq.gz,0:151 1:151,A:1646973061;C:1422549043;G:1441385824;T:1663912518;N:2800350,151,151,,,1646973061,1422549043,1441385824,1663912518,2800350,SRX5740639,SRS4676160,SRA879791,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.93085,0.92866,0.12633,0.12579,0.75812,0.76136,0.48992,0.50959,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-04-26,Undetermined,Undetermined,Cell Line,Cell Line
49829,SRR8961088,SRX5740638,SRS4676159,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,1h 5,sample exposed to microcystin for xxxh   replicate #5,,ecotype:not applicable|dev stage:not applicable|sex:not applicable|tissue:ZFL cell line|cell line:ZFL cell line|treatment:sample exposed to microcystin for xxxh   replicate #5|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to microcystin for xxxh    replicate #5,1h 5,1h 5,Sequencing libraries were generated using the TruSeq RNA Sample Preparation Kit Illumina according to manufacturers instructions. Three micrograms of total RNA were used as initial material for library preparation. Briefly  mRNA was purified using poly T oligo attached magnetic beads. Fragmentation of mRNA was conducted using divalent cations under elevated temperature in the Illumina proprietary fragmentation buffer. First strand cDNA was synthesized using random oligonucleotides and SuperScript II. Second strand cDNA was subsequently synthesized using DNA Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE adapter oligonucleotides were ligated and the library fragments were purified using the AMPure XP system Beckman Coulter. DNA fragments with ligated adaptors on both ends were selectively enriched using Illumina PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP system and quantified using the Agilent high sensitivity DNA assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,1h2_clean_R2.fq.gz 1h2_clean_R1.fq.gz,fastq fastq,5616651266.0,18598183.0,1h2 clean R1.fq.gz,0:151 1:151,A:1492544948;C:1296049637;G:1317613246;T:1507292547;N:3150888,151,151,,,1492544948,1296049637,1317613246,1507292547,3150888,SRX5740638,SRS4676159,SRA879791,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.93168,0.93082,0.12771,0.12751,0.75653,0.75964,0.508,0.51051,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-04-26,Undetermined,Undetermined,Cell Line,Cell Line
49830,SRR8959882,SRX5739436,SRS4675912,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,control  replicate #6,ck 6,,replicate:replicate=#6|ecotype:not applicable|dev stage:not applicable|sex:not applicable|tissue:ZFL cell line|BioSampleModel:Model organism or animal,,,,,,,,,replicate 6,ck 6,ck 6,Sequencing libraries were generated using the TruSeq RNA Sample Preparation Kit Illumina according to manufacturers instructions. Three micrograms of total RNA were used as initial material for library preparation. Briefly  mRNA was purified using poly T oligo attached magnetic beads. Fragmentation of mRNA was conducted using divalent cations under elevated temperature in the Illumina proprietary fragmentation buffer. First strand cDNA was synthesized using random oligonucleotides and SuperScript II. Second strand cDNA was subsequently synthesized using DNA Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE adapter oligonucleotides were ligated and the library fragments were purified using the AMPure XP system Beckman Coulter. DNA fragments with ligated adaptors on both ends were selectively enriched using Illumina PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP system and quantified using the Agilent high sensitivity DNA assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,CK3_clean_R1.fq.gz CK3_clean_R2.fq.gz,fastq fastq,6417346282.0,21249491.0,CK3 clean R1.fq.gz,0:151 1:151,A:1753073270;C:1445910840;G:1452693305;T:1762084157;N:3584710,151,151,,,1753073270,1445910840,1452693305,1762084157,3584710,SRX5739436,SRS4675912,SRA879767,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.92653,0.92662,0.11696,0.11682,0.75166,0.75379,0.50678,0.50594,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-04-26,Undetermined,Undetermined,Cell Line,Cell Line
49831,SRR8959883,SRX5739435,SRS4675911,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,control  replicate #4,ck 4,,replicate:replicate=#4|ecotype:not applicable|dev stage:not applicable|sex:not applicable|tissue:ZFL cell line|BioSampleModel:Model organism or animal,,,,,,,,,replicate 4,ck 4,ck 4,Sequencing libraries were generated using the TruSeq RNA Sample Preparation Kit Illumina according to manufacturers instructions. Three micrograms of total RNA were used as initial material for library preparation. Briefly  mRNA was purified using poly T oligo attached magnetic beads. Fragmentation of mRNA was conducted using divalent cations under elevated temperature in the Illumina proprietary fragmentation buffer. First strand cDNA was synthesized using random oligonucleotides and SuperScript II. Second strand cDNA was subsequently synthesized using DNA Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE adapter oligonucleotides were ligated and the library fragments were purified using the AMPure XP system Beckman Coulter. DNA fragments with ligated adaptors on both ends were selectively enriched using Illumina PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP system and quantified using the Agilent high sensitivity DNA assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,CK1_clean_R1.fq.gz CK1_clean_R2.fq.gz,fastq fastq,5659831830.0,18741165.0,CK1 clean R1.fq.gz,0:151 1:151,A:1532952307;C:1289729700;G:1295220307;T:1538761250;N:3168266,151,151,,,1532952307,1289729700,1295220307,1538761250,3168266,SRX5739435,SRS4675911,SRA879767,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.92518,0.92535,0.11332,0.11378,0.74919,0.75235,0.50223,0.49803,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-04-26,Undetermined,Undetermined,Cell Line,Cell Line
49832,SRR8959884,SRX5739434,SRS4675910,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,control  replicate #5,ck 5,,replicate:replicate=#5|ecotype:not applicable|dev stage:not applicable|sex:not applicable|tissue:ZFL cell line|BioSampleModel:Model organism or animal,,,,,,,,,replicate 5,ck 5,ck 5,Sequencing libraries were generated using the TruSeq RNA Sample Preparation Kit Illumina according to manufacturers instructions. Three micrograms of total RNA were used as initial material for library preparation. Briefly  mRNA was purified using poly T oligo attached magnetic beads. Fragmentation of mRNA was conducted using divalent cations under elevated temperature in the Illumina proprietary fragmentation buffer. First strand cDNA was synthesized using random oligonucleotides and SuperScript II. Second strand cDNA was subsequently synthesized using DNA Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE adapter oligonucleotides were ligated and the library fragments were purified using the AMPure XP system Beckman Coulter. DNA fragments with ligated adaptors on both ends were selectively enriched using Illumina PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP system and quantified using the Agilent high sensitivity DNA assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,CK2_clean_R1.fq.gz CK2_clean_R2.fq.gz,fastq fastq,5880727616.0,19472608.0,CK2 clean R1.fq.gz,0:151 1:151,A:1575999691;C:1352057289;G:1366253556;T:1583120335;N:3296745,151,151,,,1575999691,1352057289,1366253556,1583120335,3296745,SRX5739434,SRS4675910,SRA879767,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.93653,0.9349,0.09037,0.09026,0.76262,0.76572,0.51143,0.50376,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-04-26,Undetermined,Undetermined,Cell Line,Cell Line
49833,SRR8133154,SRX4954244,SRS3995636,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,sample exposed to microcystin for xxx hour  replicate #1,24h 1,,isolate:ZFL cell line|dev stage:not applicable|sex:not applicable|tissue:cultured cell line|cell line:ZFL|cell type:epithelia|treatment:exposed to microcystin for xxx hour  replicate #1|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to microcystin for xxx hour   replicate #1,24h 1,24h 1,Sequencing libraries were generated using the  TruSeq RNA Sample Preparation Kit Illumina according to manufacturers  instructions. Three micrograms of total RNA were used as initial material for  library preparation. Briefly  mRNA was purified using poly T oligo attached  magnetic beads. Fragmentation of mRNA was conducted using divalent cations  under elevated temperature in the Illumina proprietary fragmentation buffer.  First strand cDNA was synthesized using random oligonucleotides and  SuperScript II. Second strand cDNA was subsequently synthesized using DNA  Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments   Illumina PE adapter oligonucleotides were ligated and the library fragments  were purified using the AMPure XP system Beckman Coulter. DNA fragments  with ligated adaptors on both ends were selectively enriched using Illumina  PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified  AMPure XP system and quantified using the Agilent high sensitivity DNA  assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were  then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina  by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,24h-1_R1.fastq.gz 24h-1_R2.fastq.gz,fastq fastq,6408674352.0,21220776.0,24h 1 R1.fastq.gz,0:151 1:151,A:1752104547;C:1447174976;G:1451968217;T:1757298923;N:127689,151,151,,,1752104547,1447174976,1451968217,1757298923,127689,SRX4954244,SRS3995636,SRA800477,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.9212,0.91969,0.14419,0.14446,0.73677,0.74363,0.49228,0.49725,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2018-10-30,Undetermined,Undetermined,Cell Line,Cell Line
49834,SRR8133155,SRX4954243,SRS3995635,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,sample exposed to microcystin for xxx hour  replicate #2,24h 2,,isolate:ZFL cell line|dev stage:not applicable|sex:not applicable|tissue:cultured cell line|cell line:ZFL|cell type:epithelia|treatment:exposed to microcystin for xxx hour  replicate #2|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to microcystin for xxx hour  replicate #2,24h 2,24h 2,Sequencing libraries were generated using the TruSeq RNA Sample  Preparation Kit Illumina according to manufacturers instructions. Three  micrograms of total RNA were used as initial material for library  preparation. Briefly  mRNA was purified using poly T oligo attached magnetic  beads. Fragmentation of mRNA was conducted using divalent cations under  elevated temperature in the Illumina proprietary fragmentation buffer. First  strand cDNA was synthesized using random oligonucleotides and SuperScript II.  Second strand cDNA was subsequently synthesized using DNA Polymerase I and  RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE  adapter oligonucleotides were ligated and the library fragments were purified  using the AMPure XP system Beckman Coulter. DNA fragments with ligated  adaptors on both ends were selectively enriched using Illumina PCR Primer  Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP  system and quantified using the Agilent high sensitivity DNA assay on a  Bioanalyzer 2100 system Agilent. The sequencing libraries were then  sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by  Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,24h-2_R1.fastq.gz 24h-2_R2.fastq.gz,fastq fastq,6331528754.0,20965327.0,24h 2 R1.fastq.gz,0:151 1:151,A:1725083256;C:1436372645;G:1442486884;T:1727457912;N:128057,151,151,,,1725083256,1436372645,1442486884,1727457912,128057,SRX4954243,SRS3995635,SRA800477,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.92281,0.92303,0.13905,0.14045,0.73708,0.74401,0.50843,0.50295,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-01-01,Undetermined,Undetermined,Cell Line,Cell Line
49835,SRR8133156,SRX4954242,SRS3995634,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,sample exposed to microcystin for xxx hour  replicate #3,24h 3,,isolate:ZFL cell line|dev stage:not applicable|sex:not applicable|tissue:cultured cell line|cell line:ZFL|cell type:epithelia|treatment:exposed to microcystin for xxx hour  replicate #3|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to microcystin for xxx hour  replicate #3,24h 3,24h 3,Sequencing libraries were generated using the TruSeq RNA Sample  Preparation Kit Illumina according to manufacturers instructions. Three  micrograms of total RNA were used as initial material for library  preparation. Briefly  mRNA was purified using poly T oligo attached magnetic  beads. Fragmentation of mRNA was conducted using divalent cations under  elevated temperature in the Illumina proprietary fragmentation buffer. First  strand cDNA was synthesized using random oligonucleotides and SuperScript II.  Second strand cDNA was subsequently synthesized using DNA Polymerase I and  RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE  adapter oligonucleotides were ligated and the library fragments were purified  using the AMPure XP system Beckman Coulter. DNA fragments with ligated  adaptors on both ends were selectively enriched using Illumina PCR Primer  Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP  system and quantified using the Agilent high sensitivity DNA assay on a  Bioanalyzer 2100 system Agilent. The sequencing libraries were then  sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by  Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,24h-3_R1.fastq.gz 24h-3_R2.fastq.gz,fastq fastq,6723114940.0,22261970.0,24h 3 R1.fastq.gz,0:151 1:151,A:1833689339;C:1522824611;G:1529534136;T:1836931192;N:135662,151,151,,,1833689339,1522824611,1529534136,1836931192,135662,SRX4954242,SRS3995634,SRA800477,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.91356,0.91347,0.13955,0.14059,0.73898,0.74399,0.49776,0.50087,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-01-01,Undetermined,Undetermined,Cell Line,Cell Line
49836,SRR8133151,SRX4954241,SRS3995633,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,sample exposed to microcystin for xxx hour  replicate #3,12h 3,,isolate:ZFL cell line|dev stage:not applicable|sex:not applicable|tissue:cultured cell line|cell line:ZFL|cell type:epithelia|treatment:exposed to microcystin for xxx hour  replicate #3|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to microcystin for xxx hour  replicate #3,12h 3,12h 3,Sequencing libraries were generated using the TruSeq RNA Sample  Preparation Kit Illumina according to manufacturers instructions. Three  micrograms of total RNA were used as initial material for library  preparation. Briefly  mRNA was purified using poly T oligo attached magnetic  beads. Fragmentation of mRNA was conducted using divalent cations under  elevated temperature in the Illumina proprietary fragmentation buffer. First  strand cDNA was synthesized using random oligonucleotides and SuperScript II.  Second strand cDNA was subsequently synthesized using DNA Polymerase I and  RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE  adapter oligonucleotides were ligated and the library fragments were purified  using the AMPure XP system Beckman Coulter. DNA fragments with ligated  adaptors on both ends were selectively enriched using Illumina PCR Primer  Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP  system and quantified using the Agilent high sensitivity DNA assay on a  Bioanalyzer 2100 system Agilent. The sequencing libraries were then  sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by  Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,12h-3_R1.fastq.gz 12h-3_R2.fastq.gz,fastq fastq,6249709404.0,20694402.0,12h 3 R1.fastq.gz,0:151 1:151,A:1679876276;C:1439210018;G:1449953029;T:1680544537;N:125544,151,151,,,1679876276,1439210018,1449953029,1680544537,125544,SRX4954241,SRS3995633,SRA800476,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.9318,0.93185,0.10315,0.10397,0.7499,0.75513,0.49669,0.50516,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-01-01,Undetermined,Undetermined,Cell Line,Cell Line
49837,SRR8133152,SRX4954240,SRS3995632,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,sample exposed to microcystin for xxx hour  replicate #1,12h 1,,isolate:ZFL cell line|dev stage:not applicable|sex:not applicable|tissue:cultured cell line|cell line:ZFL|cell type:epithelia|treatment:exposed to microcystin for xxx hour  replicate #1|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to microcystin for xxx hour   replicate #1,12h 1,12h 1,Sequencing libraries were generated using the  TruSeq RNA Sample Preparation Kit Illumina according to manufacturers  instructions. Three micrograms of total RNA were used as initial material for  library preparation. Briefly  mRNA was purified using poly T oligo attached  magnetic beads. Fragmentation of mRNA was conducted using divalent cations  under elevated temperature in the Illumina proprietary fragmentation buffer.  First strand cDNA was synthesized using random oligonucleotides and  SuperScript II. Second strand cDNA was subsequently synthesized using DNA  Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments   Illumina PE adapter oligonucleotides were ligated and the library fragments  were purified using the AMPure XP system Beckman Coulter. DNA fragments  with ligated adaptors on both ends were selectively enriched using Illumina  PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified  AMPure XP system and quantified using the Agilent high sensitivity DNA  assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were  then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina  by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,12h-1_R1.fastq.gz 12h-1_R2.fastq.gz,fastq fastq,6040713928.0,20002364.0,12h 1 R1.fastq.gz,0:151 1:151,A:1604304459;C:1407301760;G:1430569355;T:1597934265;N:604089,151,151,,,1604304459,1407301760,1430569355,1597934265,604089,SRX4954240,SRS3995632,SRA800476,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.93665,0.93821,0.09301,0.0957,0.75284,0.77169,0.49115,0.48606,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-01-01,Undetermined,Undetermined,Cell Line,Cell Line
49838,SRR8133153,SRX4954239,SRS3995631,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,sample exposed to microcystin for xxx hour  replicate #2,12h 2,,isolate:ZFL cell line|dev stage:not applicable|sex:not applicable|tissue:cultured cell line|cell line:ZFL|cell type:epithelia|treatment:exposed to microcystin for xxx hour  replicate #2|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to microcystin for xxx hour  replicate #2,12h 2,12h 2,Sequencing libraries were generated using the TruSeq RNA Sample  Preparation Kit Illumina according to manufacturers instructions. Three  micrograms of total RNA were used as initial material for library  preparation. Briefly  mRNA was purified using poly T oligo attached magnetic  beads. Fragmentation of mRNA was conducted using divalent cations under  elevated temperature in the Illumina proprietary fragmentation buffer. First  strand cDNA was synthesized using random oligonucleotides and SuperScript II.  Second strand cDNA was subsequently synthesized using DNA Polymerase I and  RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE  adapter oligonucleotides were ligated and the library fragments were purified  using the AMPure XP system Beckman Coulter. DNA fragments with ligated  adaptors on both ends were selectively enriched using Illumina PCR Primer  Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP  system and quantified using the Agilent high sensitivity DNA assay on a  Bioanalyzer 2100 system Agilent. The sequencing libraries were then  sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by  Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,12h-2_R1.fastq.gz 12h-2_R2.fastq.gz,fastq fastq,6340973200.0,20996600.0,12h 2 R1.fastq.gz,0:151 1:151,A:1704338617;C:1461869913;G:1470728810;T:1703906206;N:129654,151,151,,,1704338617,1461869913,1470728810,1703906206,129654,SRX4954239,SRS3995631,SRA800476,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.93272,0.93343,0.10216,0.10338,0.74978,0.75513,0.50094,0.51045,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-01-01,Undetermined,Undetermined,Cell Line,Cell Line
49839,SRR8132757,SRX4953863,SRS3995402,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,sample exposed to microcystin for xxx hour  replicate #3,6h 3,,isolate:ZFL cell line|dev stage:not applicable|sex:not applicable|tissue:cultured cell line|cell line:ZFL|cell type:epithelia|treatment:exposed to microcystin for xxx hour  replicate #3|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to microcystin for xxx hour   replicate #3,6h 3,6h 3,Sequencing libraries were generated using the  TruSeq RNA Sample Preparation Kit Illumina according to manufacturers  instructions. Three micrograms of total RNA were used as initial material for  library preparation. Briefly  mRNA was purified using poly T oligo attached  magnetic beads. Fragmentation of mRNA was conducted using divalent cations  under elevated temperature in the Illumina proprietary fragmentation buffer.  First strand cDNA was synthesized using random oligonucleotides and  SuperScript II. Second strand cDNA was subsequently synthesized using DNA  Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments   Illumina PE adapter oligonucleotides were ligated and the library fragments  were purified using the AMPure XP system Beckman Coulter. DNA fragments  with ligated adaptors on both ends were selectively enriched using Illumina  PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified  AMPure XP system and quantified using the Agilent high sensitivity DNA  assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were  then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina  by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,6h-3_R1.fastq.gz 6h-3_R2.fastq.gz,fastq fastq,6533368340.0,21633670.0,6h 3 R1.fastq.gz,0:151 1:151,A:1684379253;C:1575728468;G:1593737205;T:1678875387;N:648027,151,151,,,1684379253,1575728468,1593737205,1678875387,648027,SRX4953863,SRS3995402,SRA800451,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.94744,0.94959,0.06681,0.06774,0.76459,0.77711,0.4873,0.49779,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-01-01,Undetermined,Undetermined,Cell Line,Cell Line
49840,SRR8132756,SRX4953862,SRS3995403,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,sample exposed to microcystin for xxx hour  replicate #1,6h 1,,isolate:ZFL cell line|dev stage:not applicable|sex:not applicable|tissue:cultured cell line|cell line:ZFL|cell type:epithelia|treatment:exposed to microcystin for xxx hour  replicate #1|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to microcystin for xxx hour   replicate #1,6h 1,6h 1,Sequencing libraries were generated using the  TruSeq RNA Sample Preparation Kit Illumina according to manufacturers  instructions. Three micrograms of total RNA were used as initial material for  library preparation. Briefly  mRNA was purified using poly T oligo attached  magnetic beads. Fragmentation of mRNA was conducted using divalent cations  under elevated temperature in the Illumina proprietary fragmentation buffer.  First strand cDNA was synthesized using random oligonucleotides and  SuperScript II. Second strand cDNA was subsequently synthesized using DNA  Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments   Illumina PE adapter oligonucleotides were ligated and the library fragments  were purified using the AMPure XP system Beckman Coulter. DNA fragments  with ligated adaptors on both ends were selectively enriched using Illumina  PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified  AMPure XP system and quantified using the Agilent high sensitivity DNA  assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were  then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina  by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,6h-1_R1.fastq.gz 6h-1_R2.fastq.gz,fastq fastq,6686156482.0,22139591.0,6h 1 R1.fastq.gz,0:151 1:151,A:1712757343;C:1622803789;G:1646819107;T:1703094369;N:681874,151,151,,,1712757343,1622803789,1646819107,1703094369,681874,SRX4953862,SRS3995403,SRA800449,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.95018,0.95234,0.0661,0.06774,0.77268,0.78652,0.49287,0.48663,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2018-10-29,Undetermined,Undetermined,Cell Line,Cell Line
49841,SRR8132755,SRX4953861,SRS3995401,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,sample exposed to microcystin for xxx hour  replicate #2,6h 2,,isolate:ZFL cell line|dev stage:not applicable|sex:not applicable|tissue:cultured cell line|cell line:ZFL|cell type:epithelia|treatment:exposed to microcystin for xxx hour  replicate #2|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to microcystin for xxx hour   replicate #2,6h 2,6h 2,Sequencing libraries were generated using the  TruSeq RNA Sample Preparation Kit Illumina according to manufacturers  instructions. Three micrograms of total RNA were used as initial material for  library preparation. Briefly  mRNA was purified using poly T oligo attached  magnetic beads. Fragmentation of mRNA was conducted using divalent cations  under elevated temperature in the Illumina proprietary fragmentation buffer.  First strand cDNA was synthesized using random oligonucleotides and  SuperScript II. Second strand cDNA was subsequently synthesized using DNA  Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments   Illumina PE adapter oligonucleotides were ligated and the library fragments  were purified using the AMPure XP system Beckman Coulter. DNA fragments  with ligated adaptors on both ends were selectively enriched using Illumina  PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified  AMPure XP system and quantified using the Agilent high sensitivity DNA  assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were  then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina  by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,6h-2_R1.fastq.gz 6h-2_R2.fastq.gz,fastq fastq,5551304204.0,18381802.0,6h 2 R1.fastq.gz,0:151 1:151,A:1408740987;C:1361721973;G:1380328727;T:1399965481;N:547036,151,151,,,1408740987,1361721973,1380328727,1399965481,547036,SRX4953861,SRS3995401,SRA800450,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.9506,0.95313,0.07031,0.07155,0.7739,0.78591,0.50125,0.49851,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2018-10-29,Undetermined,Undetermined,Cell Line,Cell Line
49842,SRR8119911,SRX4946208,SRS3988532,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,sample exposed to microcystin for xxx hour  replicate #3,3h 3,,isolate:ZFL cell line|dev stage:not applicable|sex:not applicable|tissue:cultured cell line|cell line:ZFL|cell type:epithelia|treatment:exposed to microcystin for xxx hour  replicate #3|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to microcystin for xxx hour   replicate #3,3h 3,3h 3,Sequencing libraries were generated using the  TruSeq RNA Sample Preparation Kit Illumina according to manufacturers  instructions. Three micrograms of total RNA were used as initial material for  library preparation. Briefly  mRNA was purified using poly T oligo attached  magnetic beads. Fragmentation of mRNA was conducted using divalent cations  under elevated temperature in the Illumina proprietary fragmentation buffer.  First strand cDNA was synthesized using random oligonucleotides and  SuperScript II. Second strand cDNA was subsequently synthesized using DNA  Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments   Illumina PE adapter oligonucleotides were ligated and the library fragments  were purified using the AMPure XP system Beckman Coulter. DNA fragments  with ligated adaptors on both ends were selectively enriched using Illumina  PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified  AMPure XP system and quantified using the Agilent high sensitivity DNA  assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were  then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina  by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,3h-3_R1.fastq.gz 3h-3_R2.fastq.gz,fastq fastq,6249422202.0,20693451.0,3h 3 R1.fastq.gz,0:151 1:151,A:1700610088;C:1416827975;G:1436930329;T:1694433965;N:619845,151,151,,,1700610088,1416827975,1436930329,1694433965,619845,SRX4946208,SRS3988532,SRA799983,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.924,0.92633,0.13412,0.13864,0.74158,0.76489,0.49551,0.49903,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2018-10-29,Undetermined,Undetermined,Cell Line,Cell Line
49843,SRR8119910,SRX4946207,SRS3988531,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,sample exposed to microcystin for xxx hour  replicate #2,3h 2,,isolate:ZFL cell line|dev stage:not applicable|sex:not applicable|tissue:cultured cell line|cell line:ZFL|cell type:epithelia|treatment:exposed to microcystin for xxx hour  replicate #2|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to microcystin for xxx hour   replicate #2,3h 2,3h 2,Sequencing libraries were generated using the  TruSeq RNA Sample Preparation Kit Illumina according to manufacturers  instructions. Three micrograms of total RNA were used as initial material for  library preparation. Briefly  mRNA was purified using poly T oligo attached  magnetic beads. Fragmentation of mRNA was conducted using divalent cations  under elevated temperature in the Illumina proprietary fragmentation buffer.  First strand cDNA was synthesized using random oligonucleotides and  SuperScript II. Second strand cDNA was subsequently synthesized using DNA  Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments   Illumina PE adapter oligonucleotides were ligated and the library fragments  were purified using the AMPure XP system Beckman Coulter. DNA fragments  with ligated adaptors on both ends were selectively enriched using Illumina  PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified  AMPure XP system and quantified using the Agilent high sensitivity DNA  assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were  then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina  by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,3h-2_R1.fastq.gz 3h-2_R2.fastq.gz,fastq fastq,6691460508.0,22157154.0,3h 2 R2.fastq.gz,0:151 1:151,A:1817827404;C:1520902100;G:1534921644;T:1817122657;N:686703,151,151,,,1817827404,1520902100,1534921644,1817122657,686703,SRX4946207,SRS3988531,SRA799982,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.92541,0.92734,0.13003,0.1321,0.7443,0.76019,0.50143,0.4998,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-01-01,Undetermined,Undetermined,Cell Line,Cell Line
49844,SRR8117643,SRX4943940,SRS3986328,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,sample exposed to microcystin for xxx hour  replicate #1,3h 1,,isolate:ZFL cell line|dev stage:not applicable|sex:not applicable|tissue:cultured cell line|cell line:ZFL|cell type:epithelia|treatment:exposed to microcystin for xxx hour  replicate #1|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to microcystin for xxx hour   replicate #1,3h 1,3h 1,Sequencing libraries were generated using the  TruSeq RNA Sample Preparation Kit Illumina according to manufacturers  instructions. Three micrograms of total RNA were used as initial material for  library preparation. Briefly  mRNA was purified using poly T oligo attached  magnetic beads. Fragmentation of mRNA was conducted using divalent cations  under elevated temperature in the Illumina proprietary fragmentation buffer.  First strand cDNA was synthesized using random oligonucleotides and  SuperScript II. Second strand cDNA was subsequently synthesized using DNA  Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments   Illumina PE adapter oligonucleotides were ligated and the library fragments  were purified using the AMPure XP system Beckman Coulter. DNA fragments  with ligated adaptors on both ends were selectively enriched using Illumina  PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified  AMPure XP system and quantified using the Agilent high sensitivity DNA  assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were  then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina  by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,3h-1_R1.fastq.gz 3h-1_R2.fastq.gz,fastq fastq,6151798890.0,20370195.0,3h 1 R1.fastq.gz,0:151 1:151,A:1649142984;C:1419068750;G:1435991843;T:1646989815;N:605498,151,151,,,1649142984,1419068750,1435991843,1646989815,605498,SRX4943940,SRS3986328,SRA799824,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.92965,0.93287,0.12221,0.12677,0.73397,0.75278,0.50535,0.50378,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2018-10-28,Undetermined,Undetermined,Cell Line,Cell Line
49845,SRR8115441,SRX4941738,SRS3985539,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,sample exposed to microcystin for xxx hour  replicate #3,1h 3,,isolate:ZFL cell line|dev stage:not applicable|sex:not applicable|tissue:cultured cell line|cell line:ZFL|cell type:epithelia|treatment:exposed to microcystin for xxx hour  replicate #3|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to microcystin for xxx hour   replicate #3,1h 3,1h 3,Sequencing libraries were generated using the  TruSeq RNA Sample Preparation Kit Illumina according to manufacturers  instructions. Three micrograms of total RNA were used as initial material for  library preparation. Briefly  mRNA was purified using poly T oligo attached  magnetic beads. Fragmentation of mRNA was conducted using divalent cations  under elevated temperature in the Illumina proprietary fragmentation buffer.  First strand cDNA was synthesized using random oligonucleotides and  SuperScript II. Second strand cDNA was subsequently synthesized using DNA  Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments   Illumina PE adapter oligonucleotides were ligated and the library fragments  were purified using the AMPure XP system Beckman Coulter. DNA fragments  with ligated adaptors on both ends were selectively enriched using Illumina  PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified  AMPure XP system and quantified using the Agilent high sensitivity DNA  assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were  then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina  by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,1h-3_R2.fastq.gz 1h-3_R1.fastq.gz,fastq fastq,7655572254.0,25349577.0,1h 3 R2.fastq.gz,0:151 1:151,A:2078212614;C:1742053699;G:1754520045;T:2080018836;N:767060,151,151,,,2078212614,1742053699,1754520045,2080018836,767060,SRX4941738,SRS3985539,SRA799651,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.92526,0.92744,0.12977,0.13298,0.75743,0.77061,0.50353,0.50471,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-01-01,Undetermined,Undetermined,Cell Line,Cell Line
49846,SRR8115440,SRX4941737,SRS3985538,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,sample exposed to microcystin for xxx hour  replicate #2,1h 2,,isolate:ZFL cell line|dev stage:not applicable|sex:not applicable|tissue:cultured cell line|cell line:ZFL|cell type:epithelia|treatment:exposed to microcystin for xxx hour  replicate #2|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to microcystin for xxx hour  replicate #2,1h 2,1h 2,Sequencing libraries were generated using the TruSeq RNA Sample Preparation Kit Illumina according to manufacturers instructions. Three micrograms of total RNA were used as initial material for library preparation. Briefly  mRNA was purified using poly T oligo attached magnetic beads. Fragmentation of mRNA was conducted using divalent cations under elevated temperature in the Illumina proprietary fragmentation buffer. First strand cDNA was synthesized using random oligonucleotides and SuperScript II. Second strand cDNA was subsequently synthesized using DNA Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE adapter oligonucleotides were ligated and the library fragments were purified using the AMPure XP system Beckman Coulter. DNA fragments with ligated adaptors on both ends were selectively enriched using Illumina PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP system and quantified using the Agilent high sensitivity DNA assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,1h-2_R1.fastq.gz 1h-2_R2.fastq.gz,fastq fastq,7594153306.0,25146203.0,1h 2 R1.fastq.gz,0:151 1:151,A:2048228795;C:1739666332;G:1763496812;T:2041988124;N:773243,151,151,,,2048228795,1739666332,1763496812,2041988124,773243,SRX4941737,SRS3985538,SRA799650,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.92922,0.93046,0.12988,0.1333,0.75657,0.77684,0.50439,0.49684,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-01-01,Undetermined,Undetermined,Cell Line,Cell Line
49847,SRR8109598,SRX4936168,SRS3980334,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,sample exposed to microcystin for xxx hour  replicate #1,1h 1,,isolate:ZFL cell line|dev stage:not applicable|sex:not applicable|tissue:cultured cell line|cell line:ZFL|cell type:epithelia|treatment:exposed to microcystin for xxx hour  replicate #1|BioSampleModel:Model organism or animal,,,,,,,,,sample exposed to microcystin for xxx hour  replicate #1,1h 1,1h 1,Sequencing libraries were generated using the TruSeq RNA Sample Preparation Kit Illumina according to manufacturers instructions. Three micrograms of total RNA were used as initial material for library preparation. Briefly  mRNA was purified using poly T oligo attached magnetic beads. Fragmentation of mRNA was conducted using divalent cations under elevated temperature in the Illumina proprietary fragmentation buffer. First strand cDNA was synthesized using random oligonucleotides and SuperScript II. Second strand cDNA was subsequently synthesized using DNA Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE adapter oligonucleotides were ligated and the library fragments were purified using the AMPure XP system Beckman Coulter. DNA fragments with ligated adaptors on both ends were selectively enriched using Illumina PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP system and quantified using the Agilent high sensitivity DNA assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,1h-1_R1.fastq.gz 1h-1_R2.fastq.gz,fastq fastq,6505465654.0,21541277.0,1h 1 R2.fastq.gz,0:151 1:151,A:1772064909;C:1473729340;G:1487273483;T:1771747419;N:650503,151,151,,,1772064909,1473729340,1487273483,1771747419,650503,SRX4936168,SRS3980334,SRA798650,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.92342,0.92707,0.13549,0.13873,0.7555,0.77106,0.49839,0.50202,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2018-10-25,Undetermined,Undetermined,Cell Line,Cell Line
49848,SRR8109308,SRX4935890,SRS3980091,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,sample not treated  replicate #3,ck 3,,isolate:ZFL cell line|dev stage:not applicable|sex:not applicable|tissue:cultured cell line|cell line:ZFL|cell type:epithelia|treatment:not treated  replicate #3|BioSampleModel:Model organism or animal,,,,,,,,,sample not treated  replicate #3,ck 3,ck 3,Sequencing libraries were generated using the TruSeq RNA Sample Preparation Kit Illumina according to manufacturers instructions. Three micrograms of total RNA were used as initial material for library preparation. Briefly  mRNA was purified using poly T oligo attached magnetic beads. Fragmentation of mRNA was conducted using divalent cations under elevated temperature in the Illumina proprietary fragmentation buffer. First strand cDNA was synthesized using random oligonucleotides and SuperScript II. Second strand cDNA was subsequently synthesized using DNA Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE adapter oligonucleotides were ligated and the library fragments were purified using the AMPure XP system Beckman Coulter. DNA fragments with ligated adaptors on both ends were selectively enriched using Illumina PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP system and quantified using the Agilent high sensitivity DNA assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,CK-3_R1.fastq.gz CK-3_R2.fastq.gz,fastq fastq,6691086632.0,22155916.0,CK 3 R2.fastq.gz,0:151 1:151,A:1817102254;C:1525946318;G:1537285128;T:1810073033;N:679899,151,151,,,1817102254,1525946318,1537285128,1810073033,679899,SRX4935890,SRS3980091,SRA798632,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.93213,0.93388,0.10099,0.10342,0.75828,0.77035,0.49928,0.49506,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2018-10-25,Undetermined,Undetermined,Cell Line,Cell Line
49849,SRR8109041,SRX4935630,SRS3979958,SRP166817,PRJNA498018,Danio rerio strain:ZFL cell line Genome sequencing,PRJNA498018,Whole Genome Sequencing,Transcriptional responses of ZFL exposed to microcystin LR,,,,sample not treated  replicate #2,ck 2,,isolate:ZFL cell line|dev stage:not applicable|sex:not applicable|tissue:cultured cell line|cell line:ZFL|cell type:epithelia|treatment:not treated  replicate #1|BioSampleModel:Model organism or animal,,,,,,,,,sample not treated  replicate #2,ck 2,ck 2,Sequencing libraries were generated using the TruSeq RNA Sample Preparation Kit Illumina according to manufacturers instructions. Three micrograms of total RNA were used as initial material for library preparation. Briefly  mRNA was purified using poly T oligo attached magnetic beads. Fragmentation of mRNA was conducted using divalent cations under elevated temperature in the Illumina proprietary fragmentation buffer. First strand cDNA was synthesized using random oligonucleotides and SuperScript II. Second strand cDNA was subsequently synthesized using DNA Polymerase I and RNase H. post adenylation of the 3 ends of DNA fragments  Illumina PE adapter oligonucleotides were ligated and the library fragments were purified using the AMPure XP system Beckman Coulter. DNA fragments with ligated adaptors on both ends were selectively enriched using Illumina PCR Primer Cocktail in a 15 cycle PCR reaction. The products were purified AMPure XP system and quantified using the Agilent high sensitivity DNA assay on a Bioanalyzer 2100 system Agilent. The sequencing libraries were then sequenced at both ends for 150 bp using a Hiseq Xten platform Illumina by Shanghai Personal Biotechnology Cp. Ltd.,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,HiSeq X Ten,,SRP166817,,,CK-2_R2.fastq.gz CK-2_R1.fastq.gz,fastq fastq,6135368580.0,20315790.0,CK 2 R2.fastq.gz,0:151 1:151,A:1659190299;C:1402338038;G:1422425283;T:1650808795;N:606165,151,151,,,1659190299,1402338038,1422425283,1650808795,606165,SRX4935630,SRS3979958,SRA798622,Chinese Academy of Fishery Sciences|Yangtze River Fisheries Research Institute,Chinese Academy of Fishery Sciences,2,0.93276,0.93529,0.09768,0.1008,0.75905,0.77512,0.48616,0.50755,151,151,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,trueseq,bulk,unknown,unknown,,China,2019-01-01,Undetermined,Undetermined,Cell Line,Cell Line
67908,SRR017341,SRX003632,SRS002067,SRP000652,PRJNA79415,Zebrafish IgH Sequencing,Zebrafish IgH,Other,14 zebrafish immunoglobulin heavy chain repertoires were sequenced. The first 190 bp of sequence  10 bp of MID barcodes were used to analyze the CDR3 region of the antibodies.,,pubmed:19423829,,Generic sample from Danio rerio,Fish N,,,,,,,,,,,Zebrafish IgH cDNA preparation,Zebrafish IgH cDNA FishN,Zebrafish IgH 454,"About 2µg of QIAquick cleaned PCR product for each fish was used to start the 454 library preparation process. AMPure SPRI beads Agencourt  Beverly  MA were used to concentrate PCR product and remove the remaining primers. 454 FLX DNA library construction protocol was followed for all samples. Briefly  double stranded DNA was end polished and ligated to sequencing adaptors which contained a molecular identifier MID  a nucleotide based barcode system. This allowed us to multiplex the sequencing plate and also served as an internal control. The rest of the Roche 454 protocol was followed which includes library immobilization  fill in reaction and single stranded template DNA sstDNA library isolation. The sstDNA was quantified using a digital PCR method developed in our lab White et al. ""Digital PCR provides sensitive and absolute calibration for high throughput sequencing"" BMC Genomics  2009  which gave the absolute count of DNA molecules in the library. This allowed us to eliminate the manufacturer’s suggested titration run. 16 emulsion PCR reactions were prepared for each fish with a ratio of 0.3 molecules per DNA capture bead. Two region masks were used on the sequencing plate.",,IgM primer:5 prime TGCACTGAGACAAACCGAAG 3 prime|IgZ primer:5 prime TCAGAGGCCAGACATCCAAT 3 prime,AMPLICON,TRANSCRIPTOMIC,PCR,SINGLE,LS454,454 GS FLX,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Technical Read</READ_CLASS><READ_TYPE>Adapter</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>5</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,SRP000652,,NonStandardReadNameUsed:true,N_fish.tar,fastq,40231384.0,173756.0,Zebrafish IgH cDNA FishN,0:4 1:227.54,A:10436935;C:8800020;G:9512025;T:11471941;N:10463,4,227,,,10436935,8800020,9512025,11471941,10463,SRX003632,SRS002067,SRA008134,Stanford University|Quake,Stanford University,1,0.26487,,0.0663,,0.99304,,0.01389,,229,,B,,usable mapping rate,legacy,early,unknown,random_priming,unknown,bulk,other_seq,454,,United States,2011-03-31,Undetermined,Undetermined,BCR TCR repertoire,Hematopoietic System
67909,SRR017340,SRX003631,SRS002066,SRP000652,PRJNA79415,Zebrafish IgH Sequencing,Zebrafish IgH,Other,14 zebrafish immunoglobulin heavy chain repertoires were sequenced. The first 190 bp of sequence  10 bp of MID barcodes were used to analyze the CDR3 region of the antibodies.,,pubmed:19423829,,Generic sample from Danio rerio,Fish M,,,,,,,,,,,Zebrafish IgH cDNA preparation,Zebrafish IgH cDNA FishM,Zebrafish IgH 454,"About 2µg of QIAquick cleaned PCR product for each fish was used to start the 454 library preparation process. AMPure SPRI beads Agencourt  Beverly  MA were used to concentrate PCR product and remove the remaining primers. 454 FLX DNA library construction protocol was followed for all samples. Briefly  double stranded DNA was end polished and ligated to sequencing adaptors which contained a molecular identifier MID  a nucleotide based barcode system. This allowed us to multiplex the sequencing plate and also served as an internal control. The rest of the Roche 454 protocol was followed which includes library immobilization  fill in reaction and single stranded template DNA sstDNA library isolation. The sstDNA was quantified using a digital PCR method developed in our lab White et al. ""Digital PCR provides sensitive and absolute calibration for high throughput sequencing"" BMC Genomics  2009  which gave the absolute count of DNA molecules in the library. This allowed us to eliminate the manufacturer’s suggested titration run. 16 emulsion PCR reactions were prepared for each fish with a ratio of 0.3 molecules per DNA capture bead. Two region masks were used on the sequencing plate.",,IgM primer:5 prime TGCACTGAGACAAACCGAAG 3 prime|IgZ primer:5 prime TCAGAGGCCAGACATCCAAT 3 prime,AMPLICON,TRANSCRIPTOMIC,PCR,SINGLE,LS454,454 GS FLX,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Technical Read</READ_CLASS><READ_TYPE>Adapter</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>5</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,SRP000652,,NonStandardReadNameUsed:true,M_fish.tar,fastq,37492198.0,161639.0,Zebrafish IgH cDNA FishM,0:4 1:227.95,A:9527141;C:8129088;G:9025760;T:10804127;N:6082,4,227,,,9527141,8129088,9025760,10804127,6082,SRX003631,SRS002066,SRA008134,Stanford University|Quake,Stanford University,1,0.31521,,0.11394,,0.99823,,0.00291,,208,,B,,usable mapping rate,legacy,early,unknown,random_priming,unknown,bulk,other_seq,454,,United States,2011-03-31,Undetermined,Undetermined,BCR TCR repertoire,Hematopoietic System
67910,SRR017339,SRX003630,SRS002065,SRP000652,PRJNA79415,Zebrafish IgH Sequencing,Zebrafish IgH,Other,14 zebrafish immunoglobulin heavy chain repertoires were sequenced. The first 190 bp of sequence  10 bp of MID barcodes were used to analyze the CDR3 region of the antibodies.,,pubmed:19423829,,Generic sample from Danio rerio,Fish L,,,,,,,,,,,Zebrafish IgH cDNA preparation,Zebrafish IgH cDNA FishL,Zebrafish IgH 454,"About 2µg of QIAquick cleaned PCR product for each fish was used to start the 454 library preparation process. AMPure SPRI beads Agencourt  Beverly  MA were used to concentrate PCR product and remove the remaining primers. 454 FLX DNA library construction protocol was followed for all samples. Briefly  double stranded DNA was end polished and ligated to sequencing adaptors which contained a molecular identifier MID  a nucleotide based barcode system. This allowed us to multiplex the sequencing plate and also served as an internal control. The rest of the Roche 454 protocol was followed which includes library immobilization  fill in reaction and single stranded template DNA sstDNA library isolation. The sstDNA was quantified using a digital PCR method developed in our lab White et al. ""Digital PCR provides sensitive and absolute calibration for high throughput sequencing"" BMC Genomics  2009  which gave the absolute count of DNA molecules in the library. This allowed us to eliminate the manufacturer’s suggested titration run. 16 emulsion PCR reactions were prepared for each fish with a ratio of 0.3 molecules per DNA capture bead. Two region masks were used on the sequencing plate.",,IgM primer:5 prime TGCACTGAGACAAACCGAAG 3 prime|IgZ primer:5 prime TCAGAGGCCAGACATCCAAT 3 prime,AMPLICON,TRANSCRIPTOMIC,PCR,SINGLE,LS454,454 GS FLX,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Technical Read</READ_CLASS><READ_TYPE>Adapter</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>5</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,SRP000652,,NonStandardReadNameUsed:true,L_fish.tar,fastq,37971443.0,163701.0,Zebrafish IgH cDNA FishL,0:4 1:227.96,A:9544875;C:8363123;G:9094601;T:10963684;N:5160,4,227,,,9544875,8363123,9094601,10963684,5160,SRX003630,SRS002065,SRA008134,Stanford University|Quake,Stanford University,1,0.29057,,0.07862,,0.99636,,0.00534,,245,,B,,usable mapping rate,legacy,early,unknown,random_priming,unknown,bulk,other_seq,454,,United States,2011-03-31,Undetermined,Undetermined,BCR TCR repertoire,Hematopoietic System
67911,SRR017338,SRX003629,SRS002064,SRP000652,PRJNA79415,Zebrafish IgH Sequencing,Zebrafish IgH,Other,14 zebrafish immunoglobulin heavy chain repertoires were sequenced. The first 190 bp of sequence  10 bp of MID barcodes were used to analyze the CDR3 region of the antibodies.,,pubmed:19423829,,Generic sample from Danio rerio,Fish K,,,,,,,,,,,Zebrafish IgH cDNA preparation,Zebrafish IgH cDNA FishK,Zebrafish IgH 454,"About 2µg of QIAquick cleaned PCR product for each fish was used to start the 454 library preparation process. AMPure SPRI beads Agencourt  Beverly  MA were used to concentrate PCR product and remove the remaining primers. 454 FLX DNA library construction protocol was followed for all samples. Briefly  double stranded DNA was end polished and ligated to sequencing adaptors which contained a molecular identifier MID  a nucleotide based barcode system. This allowed us to multiplex the sequencing plate and also served as an internal control. The rest of the Roche 454 protocol was followed which includes library immobilization  fill in reaction and single stranded template DNA sstDNA library isolation. The sstDNA was quantified using a digital PCR method developed in our lab White et al. ""Digital PCR provides sensitive and absolute calibration for high throughput sequencing"" BMC Genomics  2009  which gave the absolute count of DNA molecules in the library. This allowed us to eliminate the manufacturer’s suggested titration run. 16 emulsion PCR reactions were prepared for each fish with a ratio of 0.3 molecules per DNA capture bead. Two region masks were used on the sequencing plate.",,IgM primer:5 prime TGCACTGAGACAAACCGAAG 3 prime|IgZ primer:5 prime TCAGAGGCCAGACATCCAAT 3 prime,AMPLICON,TRANSCRIPTOMIC,PCR,SINGLE,LS454,454 GS FLX,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Technical Read</READ_CLASS><READ_TYPE>Adapter</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>5</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,SRP000652,,NonStandardReadNameUsed:true,K_fish.tar,fastq,54201403.0,234266.0,Zebrafish IgH cDNA FishK,0:4 1:227.37,A:13608677;C:11652239;G:12945164;T:15975205;N:20118,4,227,,,13608677,11652239,12945164,15975205,20118,SRX003629,SRS002064,SRA008134,Stanford University|Quake,Stanford University,1,0.27218,,0.07987,,0.99275,,0.01242,,244,,B,,usable mapping rate,legacy,early,unknown,random_priming,unknown,bulk,other_seq,454,,United States,2011-03-31,Undetermined,Undetermined,BCR TCR repertoire,Hematopoietic System
67912,SRR017337,SRX003628,SRS002063,SRP000652,PRJNA79415,Zebrafish IgH Sequencing,Zebrafish IgH,Other,14 zebrafish immunoglobulin heavy chain repertoires were sequenced. The first 190 bp of sequence  10 bp of MID barcodes were used to analyze the CDR3 region of the antibodies.,,pubmed:19423829,,Generic sample from Danio rerio,Fish J,,,,,,,,,,,Zebrafish IgH cDNA preparation,Zebrafish IgH cDNA FishJ,Zebrafish IgH 454,"About 2µg of QIAquick cleaned PCR product for each fish was used to start the 454 library preparation process. AMPure SPRI beads Agencourt  Beverly  MA were used to concentrate PCR product and remove the remaining primers. 454 FLX DNA library construction protocol was followed for all samples. Briefly  double stranded DNA was end polished and ligated to sequencing adaptors which contained a molecular identifier MID  a nucleotide based barcode system. This allowed us to multiplex the sequencing plate and also served as an internal control. The rest of the Roche 454 protocol was followed which includes library immobilization  fill in reaction and single stranded template DNA sstDNA library isolation. The sstDNA was quantified using a digital PCR method developed in our lab White et al. ""Digital PCR provides sensitive and absolute calibration for high throughput sequencing"" BMC Genomics  2009  which gave the absolute count of DNA molecules in the library. This allowed us to eliminate the manufacturer’s suggested titration run. 16 emulsion PCR reactions were prepared for each fish with a ratio of 0.3 molecules per DNA capture bead. Two region masks were used on the sequencing plate.",,IgM primer:5 prime TGCACTGAGACAAACCGAAG 3 prime|IgZ primer:5 prime TCAGAGGCCAGACATCCAAT 3 prime,AMPLICON,TRANSCRIPTOMIC,PCR,SINGLE,LS454,454 GS FLX,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Technical Read</READ_CLASS><READ_TYPE>Adapter</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>5</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,SRP000652,,NonStandardReadNameUsed:true,J_fish.tar,fastq,51915342.0,224027.0,Zebrafish IgH cDNA FishJ,0:4 1:227.74,A:12664582;C:12040983;G:12609762;T:14589770;N:10245,4,227,,,12664582,12040983,12609762,14589770,10245,SRX003628,SRS002063,SRA008134,Stanford University|Quake,Stanford University,1,0.29028,,0.10039,,0.9964,,0.00625,,97,,B,,usable mapping rate,legacy,early,unknown,random_priming,unknown,bulk,other_seq,454,,United States,2011-03-31,Undetermined,Undetermined,BCR TCR repertoire,Hematopoietic System
67913,SRR017336,SRX003627,SRS002062,SRP000652,PRJNA79415,Zebrafish IgH Sequencing,Zebrafish IgH,Other,14 zebrafish immunoglobulin heavy chain repertoires were sequenced. The first 190 bp of sequence  10 bp of MID barcodes were used to analyze the CDR3 region of the antibodies.,,pubmed:19423829,,Generic sample from Danio rerio,Fish I,,,,,,,,,,,Zebrafish IgH cDNA preparation,Zebrafish IgH cDNA FishI,Zebrafish IgH 454,"About 2µg of QIAquick cleaned PCR product for each fish was used to start the 454 library preparation process. AMPure SPRI beads Agencourt  Beverly  MA were used to concentrate PCR product and remove the remaining primers. 454 FLX DNA library construction protocol was followed for all samples. Briefly  double stranded DNA was end polished and ligated to sequencing adaptors which contained a molecular identifier MID  a nucleotide based barcode system. This allowed us to multiplex the sequencing plate and also served as an internal control. The rest of the Roche 454 protocol was followed which includes library immobilization  fill in reaction and single stranded template DNA sstDNA library isolation. The sstDNA was quantified using a digital PCR method developed in our lab White et al. ""Digital PCR provides sensitive and absolute calibration for high throughput sequencing"" BMC Genomics  2009  which gave the absolute count of DNA molecules in the library. This allowed us to eliminate the manufacturer’s suggested titration run. 16 emulsion PCR reactions were prepared for each fish with a ratio of 0.3 molecules per DNA capture bead. Two region masks were used on the sequencing plate.",,IgM primer:5 prime TGCACTGAGACAAACCGAAG 3 prime|IgZ primer:5 prime TCAGAGGCCAGACATCCAAT 3 prime,AMPLICON,TRANSCRIPTOMIC,PCR,SINGLE,LS454,454 GS FLX,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Technical Read</READ_CLASS><READ_TYPE>Adapter</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>5</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,SRP000652,,NonStandardReadNameUsed:true,I_fish.tar,fastq,23436268.0,100120.0,Zebrafish IgH cDNA FishI,0:4 1:230.08,A:5801823;C:5246438;G:5587169;T:6797624;N:3214,4,230,,,5801823,5246438,5587169,6797624,3214,SRX003627,SRS002062,SRA008134,Stanford University|Quake,Stanford University,1,0.34362,,0.0757,,0.99241,,0.02647,,232,,B,,usable mapping rate,legacy,early,unknown,random_priming,unknown,bulk,other_seq,454,,United States,2011-03-31,Undetermined,Undetermined,BCR TCR repertoire,Hematopoietic System
67914,SRR017335,SRX003626,SRS002061,SRP000652,PRJNA79415,Zebrafish IgH Sequencing,Zebrafish IgH,Other,14 zebrafish immunoglobulin heavy chain repertoires were sequenced. The first 190 bp of sequence  10 bp of MID barcodes were used to analyze the CDR3 region of the antibodies.,,pubmed:19423829,,Generic sample from Danio rerio,Fish H,,,,,,,,,,,Zebrafish IgH cDNA preparation,Zebrafish IgH cDNA FishH,Zebrafish IgH 454,"About 2µg of QIAquick cleaned PCR product for each fish was used to start the 454 library preparation process. AMPure SPRI beads Agencourt  Beverly  MA were used to concentrate PCR product and remove the remaining primers. 454 FLX DNA library construction protocol was followed for all samples. Briefly  double stranded DNA was end polished and ligated to sequencing adaptors which contained a molecular identifier MID  a nucleotide based barcode system. This allowed us to multiplex the sequencing plate and also served as an internal control. The rest of the Roche 454 protocol was followed which includes library immobilization  fill in reaction and single stranded template DNA sstDNA library isolation. The sstDNA was quantified using a digital PCR method developed in our lab White et al. ""Digital PCR provides sensitive and absolute calibration for high throughput sequencing"" BMC Genomics  2009  which gave the absolute count of DNA molecules in the library. This allowed us to eliminate the manufacturer’s suggested titration run. 16 emulsion PCR reactions were prepared for each fish with a ratio of 0.3 molecules per DNA capture bead. Two region masks were used on the sequencing plate.",,IgM primer:5 prime TGCACTGAGACAAACCGAAG 3 prime|IgZ primer:5 prime TCAGAGGCCAGACATCCAAT 3 prime,AMPLICON,TRANSCRIPTOMIC,PCR,SINGLE,LS454,454 GS FLX,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Technical Read</READ_CLASS><READ_TYPE>Adapter</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>5</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,SRP000652,,NonStandardReadNameUsed:true,H_fish.tar,fastq,48443452.0,213531.0,Zebrafish IgH cDNA FishH,0:4 1:222.87,A:12720681;C:10490855;G:11923926;T:13303989;N:4001,4,222,,,12720681,10490855,11923926,13303989,4001,SRX003626,SRS002061,SRA008134,Stanford University|Quake,Stanford University,1,0.45847,,0.04709,,0.98754,,0.0161,,56,,B,,usable mapping rate,legacy,early,unknown,random_priming,unknown,bulk,other_seq,454,,United States,2011-03-31,Undetermined,Undetermined,BCR TCR repertoire,Hematopoietic System
67915,SRR017334,SRX003625,SRS002060,SRP000652,PRJNA79415,Zebrafish IgH Sequencing,Zebrafish IgH,Other,14 zebrafish immunoglobulin heavy chain repertoires were sequenced. The first 190 bp of sequence  10 bp of MID barcodes were used to analyze the CDR3 region of the antibodies.,,pubmed:19423829,,Generic sample from Danio rerio,Fish G,,,,,,,,,,,Zebrafish IgH cDNA preparation,Zebrafish IgH cDNA FishG,Zebrafish IgH 454,"About 2µg of QIAquick cleaned PCR product for each fish was used to start the 454 library preparation process. AMPure SPRI beads Agencourt  Beverly  MA were used to concentrate PCR product and remove the remaining primers. 454 FLX DNA library construction protocol was followed for all samples. Briefly  double stranded DNA was end polished and ligated to sequencing adaptors which contained a molecular identifier MID  a nucleotide based barcode system. This allowed us to multiplex the sequencing plate and also served as an internal control. The rest of the Roche 454 protocol was followed which includes library immobilization  fill in reaction and single stranded template DNA sstDNA library isolation. The sstDNA was quantified using a digital PCR method developed in our lab White et al. ""Digital PCR provides sensitive and absolute calibration for high throughput sequencing"" BMC Genomics  2009  which gave the absolute count of DNA molecules in the library. This allowed us to eliminate the manufacturer’s suggested titration run. 16 emulsion PCR reactions were prepared for each fish with a ratio of 0.3 molecules per DNA capture bead. Two region masks were used on the sequencing plate.",,IgM primer:5 prime TGCACTGAGACAAACCGAAG 3 prime|IgZ primer:5 prime TCAGAGGCCAGACATCCAAT 3 prime,AMPLICON,TRANSCRIPTOMIC,PCR,SINGLE,LS454,454 GS FLX,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Technical Read</READ_CLASS><READ_TYPE>Adapter</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>5</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,SRP000652,,NonStandardReadNameUsed:true,G_fish.tar,fastq,50095821.0,217866.0,Zebrafish IgH cDNA FishG,0:4 1:225.94,A:13182103;C:11299206;G:11909574;T:13700817;N:4121,4,225,,,13182103,11299206,11909574,13700817,4121,SRX003625,SRS002060,SRA008134,Stanford University|Quake,Stanford University,1,0.37294,,0.09947,,0.99034,,0.02245,,230,,B,,usable mapping rate,legacy,early,unknown,random_priming,unknown,bulk,other_seq,454,,United States,2011-03-31,Undetermined,Undetermined,BCR TCR repertoire,Hematopoietic System
67916,SRR017333,SRX003624,SRS002059,SRP000652,PRJNA79415,Zebrafish IgH Sequencing,Zebrafish IgH,Other,14 zebrafish immunoglobulin heavy chain repertoires were sequenced. The first 190 bp of sequence  10 bp of MID barcodes were used to analyze the CDR3 region of the antibodies.,,pubmed:19423829,,Generic sample from Danio rerio,Fish F,,,,,,,,,,,Zebrafish IgH cDNA preparation,Zebrafish IgH cDNA FishF,Zebrafish IgH 454,"About 2µg of QIAquick cleaned PCR product for each fish was used to start the 454 library preparation process. AMPure SPRI beads Agencourt  Beverly  MA were used to concentrate PCR product and remove the remaining primers. 454 FLX DNA library construction protocol was followed for all samples. Briefly  double stranded DNA was end polished and ligated to sequencing adaptors which contained a molecular identifier MID  a nucleotide based barcode system. This allowed us to multiplex the sequencing plate and also served as an internal control. The rest of the Roche 454 protocol was followed which includes library immobilization  fill in reaction and single stranded template DNA sstDNA library isolation. The sstDNA was quantified using a digital PCR method developed in our lab White et al. ""Digital PCR provides sensitive and absolute calibration for high throughput sequencing"" BMC Genomics  2009  which gave the absolute count of DNA molecules in the library. This allowed us to eliminate the manufacturer’s suggested titration run. 16 emulsion PCR reactions were prepared for each fish with a ratio of 0.3 molecules per DNA capture bead. Two region masks were used on the sequencing plate.",,IgM primer:5 prime TGCACTGAGACAAACCGAAG 3 prime|IgZ primer:5 prime TCAGAGGCCAGACATCCAAT 3 prime,AMPLICON,TRANSCRIPTOMIC,PCR,SINGLE,LS454,454 GS FLX,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Technical Read</READ_CLASS><READ_TYPE>Adapter</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>5</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,SRP000652,,NonStandardReadNameUsed:true,F_fish.tar,fastq,16577798.0,83387.0,Zebrafish IgH cDNA FishF,0:4 1:194.81,A:4215316;C:3618457;G:4002690;T:4736893;N:4442,4,194,,,4215316,3618457,4002690,4736893,4442,SRX003624,SRS002059,SRA008134,Stanford University|Quake,Stanford University,1,0.57361,,0.0727,,0.99965,,0.00026,,62,,B,,usable mapping rate,legacy,early,unknown,random_priming,unknown,bulk,other_seq,454,,United States,2011-03-31,Undetermined,Undetermined,BCR TCR repertoire,Hematopoietic System
67917,SRR017332,SRX003623,SRS002058,SRP000652,PRJNA79415,Zebrafish IgH Sequencing,Zebrafish IgH,Other,14 zebrafish immunoglobulin heavy chain repertoires were sequenced. The first 190 bp of sequence  10 bp of MID barcodes were used to analyze the CDR3 region of the antibodies.,,pubmed:19423829,,Generic sample from Danio rerio,Fish E,,,,,,,,,,,Zebrafish IgH cDNA preparation,Zebrafish IgH cDNA FishE,Zebrafish IgH 454,"About 2µg of QIAquick cleaned PCR product for each fish was used to start the 454 library preparation process. AMPure SPRI beads Agencourt  Beverly  MA were used to concentrate PCR product and remove the remaining primers. 454 FLX DNA library construction protocol was followed for all samples. Briefly  double stranded DNA was end polished and ligated to sequencing adaptors which contained a molecular identifier MID  a nucleotide based barcode system. This allowed us to multiplex the sequencing plate and also served as an internal control. The rest of the Roche 454 protocol was followed which includes library immobilization  fill in reaction and single stranded template DNA sstDNA library isolation. The sstDNA was quantified using a digital PCR method developed in our lab White et al. ""Digital PCR provides sensitive and absolute calibration for high throughput sequencing"" BMC Genomics  2009  which gave the absolute count of DNA molecules in the library. This allowed us to eliminate the manufacturer’s suggested titration run. 16 emulsion PCR reactions were prepared for each fish with a ratio of 0.3 molecules per DNA capture bead. Two region masks were used on the sequencing plate.",,IgM primer:5 prime TGCACTGAGACAAACCGAAG 3 prime|IgZ primer:5 prime TCAGAGGCCAGACATCCAAT 3 prime,AMPLICON,TRANSCRIPTOMIC,PCR,SINGLE,LS454,454 GS FLX,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Technical Read</READ_CLASS><READ_TYPE>Adapter</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>5</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,SRP000652,,NonStandardReadNameUsed:true,E_fish.tar,fastq,29705006.0,131553.0,Zebrafish IgH cDNA FishE,0:4 1:221.80,A:7474430;C:6417563;G:7115572;T:8693543;N:3898,4,221,,,7474430,6417563,7115572,8693543,3898,SRX003623,SRS002058,SRA008134,Stanford University|Quake,Stanford University,1,0.3099,,0.09802,,0.99904,,0.00099,,45,,B,,usable mapping rate,legacy,early,unknown,random_priming,unknown,bulk,other_seq,454,,United States,2011-03-31,Undetermined,Undetermined,BCR TCR repertoire,Hematopoietic System
67918,SRR017331,SRX003622,SRS002057,SRP000652,PRJNA79415,Zebrafish IgH Sequencing,Zebrafish IgH,Other,14 zebrafish immunoglobulin heavy chain repertoires were sequenced. The first 190 bp of sequence  10 bp of MID barcodes were used to analyze the CDR3 region of the antibodies.,,pubmed:19423829,,Generic sample from Danio rerio,Fish D,,,,,,,,,,,Zebrafish IgH cDNA preparation,Zebrafish IgH cDNA FishD,Zebrafish IgH 454,"About 2µg of QIAquick cleaned PCR product for each fish was used to start the 454 library preparation process. AMPure SPRI beads Agencourt  Beverly  MA were used to concentrate PCR product and remove the remaining primers. 454 FLX DNA library construction protocol was followed for all samples. Briefly  double stranded DNA was end polished and ligated to sequencing adaptors which contained a molecular identifier MID  a nucleotide based barcode system. This allowed us to multiplex the sequencing plate and also served as an internal control. The rest of the Roche 454 protocol was followed which includes library immobilization  fill in reaction and single stranded template DNA sstDNA library isolation. The sstDNA was quantified using a digital PCR method developed in our lab White et al. ""Digital PCR provides sensitive and absolute calibration for high throughput sequencing"" BMC Genomics  2009  which gave the absolute count of DNA molecules in the library. This allowed us to eliminate the manufacturer’s suggested titration run. 16 emulsion PCR reactions were prepared for each fish with a ratio of 0.3 molecules per DNA capture bead. Two region masks were used on the sequencing plate.",,IgM primer:5 prime TGCACTGAGACAAACCGAAG 3 prime|IgZ primer:5 prime TCAGAGGCCAGACATCCAAT 3 prime,AMPLICON,TRANSCRIPTOMIC,PCR,SINGLE,LS454,454 GS FLX,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Technical Read</READ_CLASS><READ_TYPE>Adapter</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>5</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,SRP000652,,NonStandardReadNameUsed:true,D_fish.tar,fastq,27611909.0,123468.0,Zebrafish IgH cDNA FishD,0:4 1:219.64,A:6809564;C:6219469;G:6636933;T:7943112;N:2831,4,219,,,6809564,6219469,6636933,7943112,2831,SRX003622,SRS002057,SRA008134,Stanford University|Quake,Stanford University,1,0.45962,,0.09396,,0.99941,,0.00026,,218,,B,,usable mapping rate,legacy,early,unknown,random_priming,unknown,bulk,other_seq,454,,United States,2011-03-31,Undetermined,Undetermined,BCR TCR repertoire,Hematopoietic System
67919,SRR017330,SRX003621,SRS002056,SRP000652,PRJNA79415,Zebrafish IgH Sequencing,Zebrafish IgH,Other,14 zebrafish immunoglobulin heavy chain repertoires were sequenced. The first 190 bp of sequence  10 bp of MID barcodes were used to analyze the CDR3 region of the antibodies.,,pubmed:19423829,,Generic sample from Danio rerio,Fish C,,,,,,,,,,,Zebrafish IgH cDNA preparation,Zebrafish IgH cDNA FishC,Zebrafish IgH 454,"About 2µg of QIAquick cleaned PCR product for each fish was used to start the 454 library preparation process. AMPure SPRI beads Agencourt  Beverly  MA were used to concentrate PCR product and remove the remaining primers. 454 FLX DNA library construction protocol was followed for all samples. Briefly  double stranded DNA was end polished and ligated to sequencing adaptors which contained a molecular identifier MID  a nucleotide based barcode system. This allowed us to multiplex the sequencing plate and also served as an internal control. The rest of the Roche 454 protocol was followed which includes library immobilization  fill in reaction and single stranded template DNA sstDNA library isolation. The sstDNA was quantified using a digital PCR method developed in our lab White et al. ""Digital PCR provides sensitive and absolute calibration for high throughput sequencing"" BMC Genomics  2009  which gave the absolute count of DNA molecules in the library. This allowed us to eliminate the manufacturer’s suggested titration run. 16 emulsion PCR reactions were prepared for each fish with a ratio of 0.3 molecules per DNA capture bead. Two region masks were used on the sequencing plate.",,IgM primer:5 prime TGCACTGAGACAAACCGAAG 3 prime|IgZ primer:5 prime TCAGAGGCCAGACATCCAAT 3 prime,AMPLICON,TRANSCRIPTOMIC,PCR,SINGLE,LS454,454 GS FLX,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Technical Read</READ_CLASS><READ_TYPE>Adapter</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>5</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,SRP000652,,NonStandardReadNameUsed:true,C_fish.tar,fastq,21845405.0,95733.0,Zebrafish IgH cDNA FishC,0:4 1:224.19,A:5735195;C:4746747;G:5266352;T:6095066;N:2045,4,224,,,5735195,4746747,5266352,6095066,2045,SRX003621,SRS002056,SRA008134,Stanford University|Quake,Stanford University,1,0.38908,,0.20497,,0.99967,,0.00047,,145,,B,,usable mapping rate,legacy,early,unknown,random_priming,unknown,bulk,other_seq,454,,United States,2011-03-31,Undetermined,Undetermined,BCR TCR repertoire,Hematopoietic System
67920,SRR017329,SRX003620,SRS002055,SRP000652,PRJNA79415,Zebrafish IgH Sequencing,Zebrafish IgH,Other,14 zebrafish immunoglobulin heavy chain repertoires were sequenced. The first 190 bp of sequence  10 bp of MID barcodes were used to analyze the CDR3 region of the antibodies.,,pubmed:19423829,,Generic sample from Danio rerio,Fish B,,,,,,,,,,,Zebrafish IgH cDNA preparation,Zebrafish IgH cDNA FishB,Zebrafish IgH 454,"About 2µg of QIAquick cleaned PCR product for each fish was used to start the 454 library preparation process. AMPure SPRI beads Agencourt  Beverly  MA were used to concentrate PCR product and remove the remaining primers. 454 FLX DNA library construction protocol was followed for all samples. Briefly  double stranded DNA was end polished and ligated to sequencing adaptors which contained a molecular identifier MID  a nucleotide based barcode system. This allowed us to multiplex the sequencing plate and also served as an internal control. The rest of the Roche 454 protocol was followed which includes library immobilization  fill in reaction and single stranded template DNA sstDNA library isolation. The sstDNA was quantified using a digital PCR method developed in our lab White et al. ""Digital PCR provides sensitive and absolute calibration for high throughput sequencing"" BMC Genomics  2009  which gave the absolute count of DNA molecules in the library. This allowed us to eliminate the manufacturer’s suggested titration run. 16 emulsion PCR reactions were prepared for each fish with a ratio of 0.3 molecules per DNA capture bead. Two region masks were used on the sequencing plate.",,IgM primer:5 prime TGCACTGAGACAAACCGAAG 3 prime|IgZ primer:5 prime TCAGAGGCCAGACATCCAAT 3 prime,AMPLICON,TRANSCRIPTOMIC,PCR,SINGLE,LS454,454 GS FLX,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Technical Read</READ_CLASS><READ_TYPE>Adapter</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>5</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,SRP000652,,NonStandardReadNameUsed:true,B_fish.tar,fastq,26680294.0,118385.0,Zebrafish IgH cDNA FishB,0:4 1:221.37,A:6380496;C:6168810;G:6541530;T:7587018;N:2440,4,221,,,6380496,6168810,6541530,7587018,2440,SRX003620,SRS002055,SRA008134,Stanford University|Quake,Stanford University,1,0.35498,,0.14675,,0.99906,,0.00098,,228,,B,,usable mapping rate,legacy,early,unknown,random_priming,unknown,bulk,other_seq,454,,United States,2011-03-31,Undetermined,Undetermined,BCR TCR repertoire,Hematopoietic System
67921,SRR017328,SRX003619,SRS002054,SRP000652,PRJNA79415,Zebrafish IgH Sequencing,Zebrafish IgH,Other,14 zebrafish immunoglobulin heavy chain repertoires were sequenced. The first 190 bp of sequence  10 bp of MID barcodes were used to analyze the CDR3 region of the antibodies.,,pubmed:19423829,,Generic sample from Danio rerio,Fish A,,,,,,,,,,,Zebrafish IgH cDNA preparation,Zebrafish IgH cDNA FishA,Zebrafish IgH 454,"About 2µg of QIAquick cleaned PCR product for each fish was used to start the 454 library preparation process. AMPure SPRI beads Agencourt  Beverly  MA were used to concentrate PCR product and remove the remaining primers. 454 FLX DNA library construction protocol was followed for all samples. Briefly  double stranded DNA was end polished and ligated to sequencing adaptors which contained a molecular identifier MID  a nucleotide based barcode system. This allowed us to multiplex the sequencing plate and also served as an internal control. The rest of the Roche 454 protocol was followed which includes library immobilization  fill in reaction and single stranded template DNA sstDNA library isolation. The sstDNA was quantified using a digital PCR method developed in our lab White et al. ""Digital PCR provides sensitive and absolute calibration for high throughput sequencing"" BMC Genomics  2009  which gave the absolute count of DNA molecules in the library. This allowed us to eliminate the manufacturer’s suggested titration run. 16 emulsion PCR reactions were prepared for each fish with a ratio of 0.3 molecules per DNA capture bead. Two region masks were used on the sequencing plate.",,IgM primer:5 prime TGCACTGAGACAAACCGAAG 3 prime|IgZ primer:5 prime TCAGAGGCCAGACATCCAAT 3 prime,AMPLICON,TRANSCRIPTOMIC,PCR,SINGLE,LS454,454 GS FLX,<SPOT_DESCRIPTOR><SPOT_DECODE_SPEC><READ_SPEC><READ_INDEX>0</READ_INDEX><READ_CLASS>Technical Read</READ_CLASS><READ_TYPE>Adapter</READ_TYPE><BASE_COORD>1</BASE_COORD></READ_SPEC><READ_SPEC><READ_INDEX>1</READ_INDEX><READ_CLASS>Application Read</READ_CLASS><READ_TYPE>Forward</READ_TYPE><BASE_COORD>5</BASE_COORD></READ_SPEC></SPOT_DECODE_SPEC></SPOT_DESCRIPTOR>,SRP000652,,NonStandardReadNameUsed:true,A_fish.tar,fastq,13497752.0,61111.0,Zebrafish IgH cDNA FishA,0:4 1:216.87,A:3287411;C:3078068;G:3224467;T:3906026;N:1780,4,216,,,3287411,3078068,3224467,3906026,1780,SRX003619,SRS002054,SRA008134,Stanford University|Quake,Stanford University,1,0.32333,,0.14098,,0.99937,,0.00169,,52,,B,,usable mapping rate,legacy,early,unknown,random_priming,unknown,bulk,other_seq,454,,United States,2011-03-31,Undetermined,Undetermined,BCR TCR repertoire,Hematopoietic System
70464,SRR19897787,SRX15940767,SRS13627793,SRP384180,PRJNA854078,The eyes of Danio rerio RNA seq data from white light group  blue light group  white light + cold group and blue light +  cold group,PRJNA854078,Other,zebrafish were placed in a white light emitting diode and a blue light emitting diode and 26 degrees centigrade water body. post pretreatment for two weeks  fish were then transferred to white light and 11degrees centigrade water  respectively.,,,,,CW1,,strain:missing|age:missing|sex:missing|tissue:eye|repulicate:cold + white light repulicate 1|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio,CW1,CW1,cold + white light,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,Illumina HiSeq 2000,,SRP384180,,,CW1_1.fq.gz CW1_2.fq.gz,fastq fastq,6739882500.0,22466275.0,CW1 1.fq.gz,0:150 1:150,A:1848237756;C:1519101210;G:1513969331;T:1858563022;N:11181,150,150,,,1848237756,1519101210,1513969331,1858563022,11181,SRX15940767,SRS13627793,SRA1445974,Zhejiang Ocean University|National Engineering Research Center of Marine Fac,Zhejiang Ocean University,2,0.9202,0.92005,0.10845,0.10844,0.68603,0.68696,0.52694,0.5273,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2022-06-29,Undetermined,Undetermined,Eye,Sensory System
70465,SRR19897788,SRX15940766,SRS13627792,SRP384180,PRJNA854078,The eyes of Danio rerio RNA seq data from white light group  blue light group  white light + cold group and blue light +  cold group,PRJNA854078,Other,zebrafish were placed in a white light emitting diode and a blue light emitting diode and 26 degrees centigrade water body. post pretreatment for two weeks  fish were then transferred to white light and 11degrees centigrade water  respectively.,,,,,CB3,,strain:missing|age:missing|sex:missing|tissue:eye|repulicate:cold + blue light repulicate 3|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio,CB3,CB3,cold + blue light,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,Illumina HiSeq 2000,,SRP384180,,,CB3_1.fq.gz CB3_2.fq.gz,fastq fastq,6616936500.0,22056455.0,CB3 1.fq.gz,0:150 1:150,A:1808345659;C:1499214022;G:1492074811;T:1817144348;N:157660,150,150,,,1808345659,1499214022,1492074811,1817144348,157660,SRX15940766,SRS13627792,SRA1445974,Zhejiang Ocean University|National Engineering Research Center of Marine Fac,Zhejiang Ocean University,2,0.92167,0.92063,0.10246,0.10193,0.6883,0.68832,0.51958,0.52373,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2022-06-29,Undetermined,Undetermined,Eye,Sensory System
70466,SRR19897789,SRX15940765,SRS13627791,SRP384180,PRJNA854078,The eyes of Danio rerio RNA seq data from white light group  blue light group  white light + cold group and blue light +  cold group,PRJNA854078,Other,zebrafish were placed in a white light emitting diode and a blue light emitting diode and 26 degrees centigrade water body. post pretreatment for two weeks  fish were then transferred to white light and 11degrees centigrade water  respectively.,,,,,CB2,,strain:missing|age:missing|sex:missing|tissue:eye|repulicate:cold + blue light repulicate 2|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio,CB2,CB2,cold + blue light,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,Illumina HiSeq 2000,,SRP384180,,,CB2_1.fq.gz CB2_2.fq.gz,fastq fastq,6643125000.0,22143750.0,CB2 1.fq.gz,0:150 1:150,A:1834995141;C:1484447017;G:1478473640;T:1845045394;N:163808,150,150,,,1834995141,1484447017,1478473640,1845045394,163808,SRX15940765,SRS13627791,SRA1445974,Zhejiang Ocean University|National Engineering Research Center of Marine Fac,Zhejiang Ocean University,2,0.91587,0.91485,0.10928,0.10908,0.67271,0.67284,0.53214,0.51839,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2022-06-29,Undetermined,Undetermined,Eye,Sensory System
70467,SRR19897790,SRX15940764,SRS13627790,SRP384180,PRJNA854078,The eyes of Danio rerio RNA seq data from white light group  blue light group  white light + cold group and blue light +  cold group,PRJNA854078,Other,zebrafish were placed in a white light emitting diode and a blue light emitting diode and 26 degrees centigrade water body. post pretreatment for two weeks  fish were then transferred to white light and 11degrees centigrade water  respectively.,,,,,CB1,,strain:missing|age:missing|sex:missing|tissue:eye|repulicate:cold + blue light repulicate 1|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio,CB1,CB1,cold + blue light,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,Illumina HiSeq 2000,,SRP384180,,,CB1_1.fq.gz CB1_2.fq.gz,fastq fastq,6726735900.0,22422453.0,CB1 1.fq.gz,0:150 1:150,A:1854984195;C:1506200798;G:1500739385;T:1864656690;N:154832,150,150,,,1854984195,1506200798,1500739385,1864656690,154832,SRX15940764,SRS13627790,SRA1445974,Zhejiang Ocean University|National Engineering Research Center of Marine Fac,Zhejiang Ocean University,2,0.92107,0.92013,0.11091,0.11046,0.68416,0.68369,0.52205,0.51943,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2022-06-29,Undetermined,Undetermined,Eye,Sensory System
70468,SRR19897791,SRX15940763,SRS13627789,SRP384180,PRJNA854078,The eyes of Danio rerio RNA seq data from white light group  blue light group  white light + cold group and blue light +  cold group,PRJNA854078,Other,zebrafish were placed in a white light emitting diode and a blue light emitting diode and 26 degrees centigrade water body. post pretreatment for two weeks  fish were then transferred to white light and 11degrees centigrade water  respectively.,,,,,W3,,strain:missing|age:missing|sex:missing|tissue:eye|repulicate:white repulicate 3|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio,W3,W3,white light,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,Illumina HiSeq 2000,,SRP384180,,,W3_1.fq.gz W3_2.fq.gz,fastq fastq,6768510900.0,22561703.0,W3 1.fq.gz,0:150 1:150,A:1854668626;C:1528356228;G:1523098237;T:1862376595;N:11214,150,150,,,1854668626,1528356228,1523098237,1862376595,11214,SRX15940763,SRS13627789,SRA1445974,Zhejiang Ocean University|National Engineering Research Center of Marine Fac,Zhejiang Ocean University,2,0.92284,0.92018,0.10477,0.10423,0.68032,0.68105,0.52004,0.52091,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2022-06-29,Undetermined,Undetermined,Eye,Sensory System
70469,SRR19897792,SRX15940762,SRS13627788,SRP384180,PRJNA854078,The eyes of Danio rerio RNA seq data from white light group  blue light group  white light + cold group and blue light +  cold group,PRJNA854078,Other,zebrafish were placed in a white light emitting diode and a blue light emitting diode and 26 degrees centigrade water body. post pretreatment for two weeks  fish were then transferred to white light and 11degrees centigrade water  respectively.,,,,,W2,,strain:missing|age:missing|sex:missing|tissue:eye|repulicate:white repulicate 2|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio,W2,W2,white light,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,Illumina HiSeq 2000,,SRP384180,,,W2_1.fq.gz W2_2.fq.gz,fastq fastq,6680260200.0,22267534.0,W2 1.fq.gz,0:150 1:150,A:1823317259;C:1515290462;G:1509530485;T:1832110882;N:11112,150,150,,,1823317259,1515290462,1509530485,1832110882,11112,SRX15940762,SRS13627788,SRA1445974,Zhejiang Ocean University|National Engineering Research Center of Marine Fac,Zhejiang Ocean University,2,0.92292,0.92065,0.09554,0.09545,0.67551,0.6757,0.50849,0.51222,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2022-06-29,Undetermined,Undetermined,Eye,Sensory System
70470,SRR19897793,SRX15940761,SRS13627787,SRP384180,PRJNA854078,The eyes of Danio rerio RNA seq data from white light group  blue light group  white light + cold group and blue light +  cold group,PRJNA854078,Other,zebrafish were placed in a white light emitting diode and a blue light emitting diode and 26 degrees centigrade water body. post pretreatment for two weeks  fish were then transferred to white light and 11degrees centigrade water  respectively.,,,,,W1,,strain:missing|age:missing|sex:missing|tissue:eye|repulicate:white repulicate 1|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio,W1,W1,white light,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,Illumina HiSeq 2000,,SRP384180,,,W1_1.fq.gz W1_2.fq.gz,fastq fastq,6781992000.0,22606640.0,W1 1.fq.gz,0:150 1:150,A:1844053579;C:1544613499;G:1543816397;T:1849496814;N:11711,150,150,,,1844053579,1544613499,1543816397,1849496814,11711,SRX15940761,SRS13627787,SRA1445974,Zhejiang Ocean University|National Engineering Research Center of Marine Fac,Zhejiang Ocean University,2,0.92064,0.91964,0.09713,0.09743,0.67667,0.67746,0.5212,0.50218,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2022-06-29,Undetermined,Undetermined,Eye,Sensory System
70471,SRR19897794,SRX15940760,SRS13627786,SRP384180,PRJNA854078,The eyes of Danio rerio RNA seq data from white light group  blue light group  white light + cold group and blue light +  cold group,PRJNA854078,Other,zebrafish were placed in a white light emitting diode and a blue light emitting diode and 26 degrees centigrade water body. post pretreatment for two weeks  fish were then transferred to white light and 11degrees centigrade water  respectively.,,,,,B3,,strain:missing|age:missing|sex:missing|tissue:eye|repulicate:blue repulicate 3|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio,B3,B3,blue light,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,Illumina HiSeq 2000,,SRP384180,,,B3_1.fq.gz B3_2.fq.gz,fastq fastq,6656595900.0,22188653.0,B3 1.fq.gz,0:150 1:150,A:1805784355;C:1520422218;G:1518168444;T:1812078392;N:142491,150,150,,,1805784355,1520422218,1518168444,1812078392,142491,SRX15940760,SRS13627786,SRA1445974,Zhejiang Ocean University|National Engineering Research Center of Marine Fac,Zhejiang Ocean University,2,0.92236,0.91914,0.09522,0.09395,0.67661,0.67722,0.518,0.51697,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2022-06-29,Undetermined,Undetermined,Eye,Sensory System
70472,SRR19897795,SRX15940759,SRS13627785,SRP384180,PRJNA854078,The eyes of Danio rerio RNA seq data from white light group  blue light group  white light + cold group and blue light +  cold group,PRJNA854078,Other,zebrafish were placed in a white light emitting diode and a blue light emitting diode and 26 degrees centigrade water body. post pretreatment for two weeks  fish were then transferred to white light and 11degrees centigrade water  respectively.,,,,,CW3,,strain:missing|age:missing|sex:missing|tissue:eye|repulicate:cold + white light repulicate 3|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio,CW3,CW3,cold + white light,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,Illumina HiSeq 2000,,SRP384180,,,CW3_1.fq.gz CW3_2.fq.gz,fastq fastq,6747757500.0,22492525.0,CW3 1.fq.gz,0:150 1:150,A:1879771229;C:1493093261;G:1485694977;T:1889044111;N:153922,150,150,,,1879771229,1493093261,1485694977,1889044111,153922,SRX15940759,SRS13627785,SRA1445974,Zhejiang Ocean University|National Engineering Research Center of Marine Fac,Zhejiang Ocean University,2,0.91511,0.9134,0.11866,0.11919,0.67667,0.67744,0.53077,0.53216,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2022-06-29,Undetermined,Undetermined,Eye,Sensory System
70473,SRR19897796,SRX15940758,SRS13627784,SRP384180,PRJNA854078,The eyes of Danio rerio RNA seq data from white light group  blue light group  white light + cold group and blue light +  cold group,PRJNA854078,Other,zebrafish were placed in a white light emitting diode and a blue light emitting diode and 26 degrees centigrade water body. post pretreatment for two weeks  fish were then transferred to white light and 11degrees centigrade water  respectively.,,,,,CW2,,strain:missing|age:missing|sex:missing|tissue:eye|repulicate:cold + white light repulicate 2|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio,CW2,CW2,cold + white light,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,Illumina HiSeq 2000,,SRP384180,,,CW2_1.fq.gz CW2_2.fq.gz,fastq fastq,6683398200.0,22277994.0,CW2 1.fq.gz,0:150 1:150,A:1843667678;C:1495135303;G:1486210450;T:1858373680;N:11089,150,150,,,1843667678,1495135303,1486210450,1858373680,11089,SRX15940758,SRS13627784,SRA1445974,Zhejiang Ocean University|National Engineering Research Center of Marine Fac,Zhejiang Ocean University,2,0.91857,0.91787,0.11123,0.11217,0.68753,0.68858,0.5306,0.49945,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2022-06-29,Undetermined,Undetermined,Eye,Sensory System
70474,SRR19897797,SRX15940757,SRS13627783,SRP384180,PRJNA854078,The eyes of Danio rerio RNA seq data from white light group  blue light group  white light + cold group and blue light +  cold group,PRJNA854078,Other,zebrafish were placed in a white light emitting diode and a blue light emitting diode and 26 degrees centigrade water body. post pretreatment for two weeks  fish were then transferred to white light and 11degrees centigrade water  respectively.,,,,,B2,,strain:missing|age:missing|sex:missing|tissue:eye|repulicate:blue repulicate 2|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio,B2,B2,blue light,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,Illumina HiSeq 2000,,SRP384180,,,B2_1.fq.gz B2_2.fq.gz,fastq fastq,6727692000.0,22425640.0,B2 1.fq.gz,0:150 1:150,A:1850003227;C:1513202517;G:1506953883;T:1857378373;N:154000,150,150,,,1850003227,1513202517,1506953883,1857378373,154000,SRX15940757,SRS13627783,SRA1445974,Zhejiang Ocean University|National Engineering Research Center of Marine Fac,Zhejiang Ocean University,2,0.91912,0.91906,0.1068,0.10681,0.6733,0.67247,0.52417,0.51448,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2022-06-29,Undetermined,Undetermined,Eye,Sensory System
70475,SRR19897798,SRX15940756,SRS13627782,SRP384180,PRJNA854078,The eyes of Danio rerio RNA seq data from white light group  blue light group  white light + cold group and blue light +  cold group,PRJNA854078,Other,zebrafish were placed in a white light emitting diode and a blue light emitting diode and 26 degrees centigrade water body. post pretreatment for two weeks  fish were then transferred to white light and 11degrees centigrade water  respectively.,,,,,B1,,strain:missing|age:missing|sex:missing|tissue:eye|repulicate:blue repulicate 1|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio,B1,B1,blue light,,,RNA-Seq,TRANSCRIPTOMIC,PCR,PAIRED,ILLUMINA,Illumina HiSeq 2000,,SRP384180,,,B1_1.fq.gz B1_2.fq.gz,fastq fastq,6763694400.0,22545648.0,B1 1.fq.gz,0:150 1:150,A:1864141494;C:1516607505;G:1508752023;T:1874030068;N:163310,150,150,,,1864141494,1516607505,1508752023,1874030068,163310,SRX15940756,SRS13627782,SRA1445974,Zhejiang Ocean University|National Engineering Research Center of Marine Fac,Zhejiang Ocean University,2,0.91777,0.91753,0.11235,0.11188,0.68065,0.68069,0.51959,0.52086,150,150,B,B,biological fallback assumption,illumina,hiseq_era,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2022-06-29,Undetermined,Undetermined,Eye,Sensory System