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
38257,SRR1609758,SRX730411,SRS719632,SRP048807,PRJNA263496,Global identification of the gene networks and cis regulatory elements of the cold response in zebrafish,GSE62221,Transcriptome Analysis,The transcriptional programs of ectothermic teleosts are directly influenced by water temperature. Although various cold responsive transcriptional patterns have been determined in fishes  the systematic molecular networks governing the temperature responses are still unknown. We profiled the transcriptional responses in eight tissues of zebrafish exposed to graded cold temperatures  ranging from normal 28°C to mild 18°C and severe 10°C cold  using RNA seq. The tissues varied in the number of cold responsive genes  of which the kidney appeared to be most sensitive  whereas the brain was the least. Fuzzy k means clustering revealed 34 gene clusters of distinct expression patterns  demonstrating diverse tissue specific responses in conjunction with multiple aspects of ubiquitous cross tissue responses to cold. Thirty one GO terms were over represented upon cold treatment. These terms are involved in basic cellular processes  such as RNA splicing and proton transport  as well tissue specific processes  such as ‘negative regulation of endopeptidase activity’ in the kidney. To identify the cis regulatory elements governing the concerted cold responses  the promoters of the genes that demonstrated strong co regulation were analyzed using an enriched motif discovery program  DREME. Eleven motifs  6 known and 5 novel  were identified. These motifs belong to the genes corresponding to the 16 over represented GO terms identified above. Some motifs  such as the AP 1 and STAT1 binding sites  are known to be stress responsive. By integrating comprehensive cold induced transcriptional changes with a cis motif identification tool  we identified genome wide regulatory networks for the cold response in zebrafish. The identified networks provided new insights into molecular mechanisms of thermal responses in teleosts. Overall design: Examination of gene expression of 24 samples eight tissues at three temperatures,,pubmed:26227973,,spleen10,GSM1523053,,source name:spleen|tissue:spleen|temperature:10°C|strain:Tubingen|age:6 mpf,spleen10,Illumina Casava1.7 software used for basecalling. The raw reads were assessed for their quality using FASTX toolkit http://hannonlab.cshl.edu/fastx toolkit. Reads with a Phred quality score less than 5 over the 95% nt would be removed. TopHat was used to map the reads to the reference genome. Then HTSeq count http://www huber.embl.de/users/anders/HTSeq/doc/overview.html  which is a python based script  was then applied to count the number of reads mapped to the genes. Reads Per Kilobase of exon per Megabase of library size RPKM were calculated using a protocol from Chepelev et al.  Nucleic Acids Research  2009. In short  exons from all isoforms of a gene were merged to create one meta transcript. The number of reads falling in the exons of this meta transcript were counted and normalized by the size of the meta transcript and by the size of the library. Genome build: zebrafish genome sequence and gtf files were downloaded from the Ensembl release 72 Supplementary files format and content: tab delimited text files include RPKM values for each Sample ...,spleen,fish were maintained 12h to adapt low temperatures and then killed by pithing,Tissues were removed  flash frozen on dry ice  and RNA was harvested using Trizol reagent. Illumina TruSeq RNA Sample Prep Kit was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols,,tissue:spleen|temperature:10°C|strain:Tubingen|age:6 mpf,GSM1523053,GSM1523053: spleen10; Danio rerio; RNA Seq,GSM1523053,,1,Tissues were removed  flash frozen on dry ice  and RNA was harvested using Trizol reagent. Illumina TruSeq RNA Sample Prep Kit was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols,GEO Accession:GSM1523053,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2000,,SRP048807,,,spleen10_2.fq.gz spleen10_1.fq.gz,fastq fastq,5089614600.0,25448073.0,GSM1523053 r1,0:100 1:100,A:1315179584;C:1230198758;G:1227165313;T:1316987828;N:83117,100,100,,,1315179584,1230198758,1227165313,1316987828,83117,SRX730411,SRS719632,SRA189240,GEO,Shanghai Ocean University,2,0.9612,0.9561,0.04114,0.04116,0.77518,0.77926,0.42558,0.42199,100,100,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,unknown,unknown,,China,2014-10-09,Adult,Adult,Spleen,Hematopoietic System
38258,SRR1609757,SRX730410,SRS719631,SRP048807,PRJNA263496,Global identification of the gene networks and cis regulatory elements of the cold response in zebrafish,GSE62221,Transcriptome Analysis,The transcriptional programs of ectothermic teleosts are directly influenced by water temperature. Although various cold responsive transcriptional patterns have been determined in fishes  the systematic molecular networks governing the temperature responses are still unknown. We profiled the transcriptional responses in eight tissues of zebrafish exposed to graded cold temperatures  ranging from normal 28°C to mild 18°C and severe 10°C cold  using RNA seq. The tissues varied in the number of cold responsive genes  of which the kidney appeared to be most sensitive  whereas the brain was the least. Fuzzy k means clustering revealed 34 gene clusters of distinct expression patterns  demonstrating diverse tissue specific responses in conjunction with multiple aspects of ubiquitous cross tissue responses to cold. Thirty one GO terms were over represented upon cold treatment. These terms are involved in basic cellular processes  such as RNA splicing and proton transport  as well tissue specific processes  such as ‘negative regulation of endopeptidase activity’ in the kidney. To identify the cis regulatory elements governing the concerted cold responses  the promoters of the genes that demonstrated strong co regulation were analyzed using an enriched motif discovery program  DREME. Eleven motifs  6 known and 5 novel  were identified. These motifs belong to the genes corresponding to the 16 over represented GO terms identified above. Some motifs  such as the AP 1 and STAT1 binding sites  are known to be stress responsive. By integrating comprehensive cold induced transcriptional changes with a cis motif identification tool  we identified genome wide regulatory networks for the cold response in zebrafish. The identified networks provided new insights into molecular mechanisms of thermal responses in teleosts. Overall design: Examination of gene expression of 24 samples eight tissues at three temperatures,,pubmed:26227973,,spleen18,GSM1523052,,source name:spleen|tissue:spleen|temperature:18°C|strain:Tubingen|age:6 mpf,spleen18,Illumina Casava1.7 software used for basecalling. The raw reads were assessed for their quality using FASTX toolkit http://hannonlab.cshl.edu/fastx toolkit. Reads with a Phred quality score less than 5 over the 95% nt would be removed. TopHat was used to map the reads to the reference genome. Then HTSeq count http://www huber.embl.de/users/anders/HTSeq/doc/overview.html  which is a python based script  was then applied to count the number of reads mapped to the genes. Reads Per Kilobase of exon per Megabase of library size RPKM were calculated using a protocol from Chepelev et al.  Nucleic Acids Research  2009. In short  exons from all isoforms of a gene were merged to create one meta transcript. The number of reads falling in the exons of this meta transcript were counted and normalized by the size of the meta transcript and by the size of the library. Genome build: zebrafish genome sequence and gtf files were downloaded from the Ensembl release 72 Supplementary files format and content: tab delimited text files include RPKM values for each Sample ...,spleen,fish were maintained 12h to adapt low temperatures and then killed by pithing,Tissues were removed  flash frozen on dry ice  and RNA was harvested using Trizol reagent. Illumina TruSeq RNA Sample Prep Kit was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols,,tissue:spleen|temperature:18°C|strain:Tubingen|age:6 mpf,GSM1523052,GSM1523052: spleen18; Danio rerio; RNA Seq,GSM1523052,,1,Tissues were removed  flash frozen on dry ice  and RNA was harvested using Trizol reagent. Illumina TruSeq RNA Sample Prep Kit was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols,GEO Accession:GSM1523052,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2000,,SRP048807,,,spleen18_1.fq.gz spleen18_2.fq.gz,fastq fastq,4494055400.0,22470277.0,GSM1523052 r1,0:100 1:100,A:1167396911;C:1079923943;G:1078183614;T:1168479101;N:71831,100,100,,,1167396911,1079923943,1078183614,1168479101,71831,SRX730410,SRS719631,SRA189240,GEO,Shanghai Ocean University,2,0.96809,0.96224,0.02675,0.02626,0.80012,0.80369,0.28419,0.28966,100,100,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,unknown,unknown,,China,2014-10-09,Adult,Adult,Spleen,Hematopoietic System
38259,SRR1609756,SRX730409,SRS719630,SRP048807,PRJNA263496,Global identification of the gene networks and cis regulatory elements of the cold response in zebrafish,GSE62221,Transcriptome Analysis,The transcriptional programs of ectothermic teleosts are directly influenced by water temperature. Although various cold responsive transcriptional patterns have been determined in fishes  the systematic molecular networks governing the temperature responses are still unknown. We profiled the transcriptional responses in eight tissues of zebrafish exposed to graded cold temperatures  ranging from normal 28°C to mild 18°C and severe 10°C cold  using RNA seq. The tissues varied in the number of cold responsive genes  of which the kidney appeared to be most sensitive  whereas the brain was the least. Fuzzy k means clustering revealed 34 gene clusters of distinct expression patterns  demonstrating diverse tissue specific responses in conjunction with multiple aspects of ubiquitous cross tissue responses to cold. Thirty one GO terms were over represented upon cold treatment. These terms are involved in basic cellular processes  such as RNA splicing and proton transport  as well tissue specific processes  such as ‘negative regulation of endopeptidase activity’ in the kidney. To identify the cis regulatory elements governing the concerted cold responses  the promoters of the genes that demonstrated strong co regulation were analyzed using an enriched motif discovery program  DREME. Eleven motifs  6 known and 5 novel  were identified. These motifs belong to the genes corresponding to the 16 over represented GO terms identified above. Some motifs  such as the AP 1 and STAT1 binding sites  are known to be stress responsive. By integrating comprehensive cold induced transcriptional changes with a cis motif identification tool  we identified genome wide regulatory networks for the cold response in zebrafish. The identified networks provided new insights into molecular mechanisms of thermal responses in teleosts. Overall design: Examination of gene expression of 24 samples eight tissues at three temperatures,,pubmed:26227973,,spleen28,GSM1523051,,source name:spleen|tissue:spleen|temperature:28°C|strain:Tubingen|age:6 mpf,spleen28,Illumina Casava1.7 software used for basecalling. The raw reads were assessed for their quality using FASTX toolkit http://hannonlab.cshl.edu/fastx toolkit. Reads with a Phred quality score less than 5 over the 95% nt would be removed. TopHat was used to map the reads to the reference genome. Then HTSeq count http://www huber.embl.de/users/anders/HTSeq/doc/overview.html  which is a python based script  was then applied to count the number of reads mapped to the genes. Reads Per Kilobase of exon per Megabase of library size RPKM were calculated using a protocol from Chepelev et al.  Nucleic Acids Research  2009. In short  exons from all isoforms of a gene were merged to create one meta transcript. The number of reads falling in the exons of this meta transcript were counted and normalized by the size of the meta transcript and by the size of the library. Genome build: zebrafish genome sequence and gtf files were downloaded from the Ensembl release 72 Supplementary files format and content: tab delimited text files include RPKM values for each Sample ...,spleen,fish were maintained 12h to adapt low temperatures and then killed by pithing,Tissues were removed  flash frozen on dry ice  and RNA was harvested using Trizol reagent. Illumina TruSeq RNA Sample Prep Kit was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols,,tissue:spleen|temperature:28°C|strain:Tubingen|age:6 mpf,GSM1523051,GSM1523051: spleen28; Danio rerio; RNA Seq,GSM1523051,,1,Tissues were removed  flash frozen on dry ice  and RNA was harvested using Trizol reagent. Illumina TruSeq RNA Sample Prep Kit was used with 1 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols,GEO Accession:GSM1523051,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina HiSeq 2000,,SRP048807,,,spleen28_2.fq.gz spleen28_1.fq.gz,fastq fastq,3499734800.0,17498674.0,GSM1523051 r1,0:100 1:100,A:912324481;C:841616616;G:837795621;T:907938558;N:59524,100,100,,,912324481,841616616,837795621,907938558,59524,SRX730409,SRS719630,SRA189240,GEO,Shanghai Ocean University,2,0.95732,0.95047,0.04767,0.04837,0.75507,0.7613,0.5152,0.51185,100,100,B,B,biological fallback assumption,illumina,hiseq_era,unknown,cdna_unspecified,trueseq,bulk,unknown,unknown,,China,2014-10-09,Adult,Adult,Spleen,Hematopoietic System
53009,SRR9662030,SRX6422906,SRS5079696,SRP213938,PRJNA553572,A map of cis regulatory elements and 3D genome structures in zebrafish,GSE134055,Other,The zebrafish has been widely used for the study of human disease and development  as 70% of the protein coding genes are conserved between the two species. Annotation of functional control elements of the zebrafish genome  however  has lagged behind that of other model systems such as mouse and Drosophila. Based on multi omics approaches taken in the ENCODE and Roadmap Epigenomics projects  we performed RNA seq  ATAC seq  ChIP seq and Hi C experiments in ten adult and two embryonic tissues to generate a comprehensive map of transcriptomes and regulatory elements in the zebrafish Tuebingen reference strain. Overall  we have identified 235 596 cis regulatory elements  which potentially shape the tissue specific and developmental stage specific gene expression in zebrafish. A comparison of zebrafish  human  and mouse regulatory elements allowed us to identify both evolutionarily conserved and species specific regulatory sequences. Furthermore  through the analysis of Hi C data in zebrafish brain and muscle  we observed different levels of 3D genome organization  including compartment  topological associating domains TADs  and chromatin loops in zebrafish. A subset of TADs are deeply conserved between zebrafish and human. This work provides an additional epigenomic anchor for the functional annotation of vertebrate genomes and the study of evolutionally conserved elements of 3D genome organization. Overall design: 13 tissues from adult and  embryonic stage were examined using ChIP Seq H3K27ac and H3K4me3  RNA Seq  11 of them were examined using ATAC seq  WGBS and ChIP seq H3K9me3 and H3K9me2  and one scATAC seq in brain. Additionally we performed HiC experiments in adult muscle and brain. Please note that  for the samples GSM4661977 GSM4662088  [1] each processed data generated from both replicates is linked to the corresponding *rep1 sample records [2] the input sample used for each ChIP sample is indicated in the description field in the corresponding input sample records.,,pubmed:33239788;pubmed:35649578,,YueLab RNA Seq Spleen rep2,GSM3934898,,source name:Tissue|strain:Tuebingen|tissue:Spleen,YueLab RNA Seq Spleen rep2,RNA seq reads were aligned to zv10 genome assembly using STAR; ChIP seq and ATAC seq reads were aligned to zv10 genome assembly using BWA HiC reads were aligned to zv10 genome assembly using Bowtie2 The TPM value of gene expression was caculated using RSEM ChIP seq and ATAC seq peaks were called using MACS2 with the following  setting: ChIP seq q value <10e 2  p value<10e 5  Change>1 FC>2. ATAC seq: q value<10e 2 and p value<10e 5 HiC matrix was generated using HiC Pro Genome build: zv10 Supplementary files format and content: tab delimited text files include TPM values for each Sample; the narrowPeak files included the peaks for each Sample; The .hic file were the matrix of Hi C for each Sample.**All replicates were merged,Tissue,,For each RNA seq experiment  the same tissues combined from at least two Tuebingen fish were used as one replicate. For embryonic trunk  ten 1 dpf fish were dechorionated with pronase and trunk were cut off for RNA seq. For embryonic neuron  green cells from TgHuc:Kaede cells were sorted by FACS and approxinately 20 000 cells were used for one replicate. The tissue RNA was extracted from Trizol® according to the protocol Invitrogen. The cDNA libraries were performed using SureSelect Strand Specific RNA Library Preparation Kit Agilent according to the manufacturer’s protocol. Briefly  polyA RNA was purified from 1000 ng of total RNA using oligo dT beads Invitrogen. Extracted RNA was first fragmented  then followed by reverse transcription  end repair  adenylation  adaptor ligation and subsequent PCR amplification. The final product was checked by size distribution and concentration using BioAnalyzer High Sensitivity DNA Kit Agilent and Kapa Library Quantification Kit Kapa Biosystems and then followed by pair end 2X 50 bp high throughput sequencing using HiSeq 2500 Illumina.,Embryonic and ault Tuebingen zebrafish were raised under standard laboratory conditions,strain:Tuebingen|tissue:Spleen,GSM3934898,GSM3934898: YueLab RNA Seq Spleen rep2; Danio rerio; RNA Seq,GSM3934898,,1,For each RNA seq experiment  the same tissues combined from at least two Tuebingen fish were used as one replicate. For embryonic trunk  ten 1 dpf fish were dechorionated with pronase and trunk were cut off for RNA seq. For embryonic neuron  green cells from TgHuc:Kaede cells were sorted by FACS and approxinately 20 000 cells were used for one replicate. The tissue RNA was extracted from Trizol® according to the protocol Invitrogen. The cDNA libraries were performed using SureSelect Strand Specific RNA Library Preparation Kit Agilent according to the manufacturer's protocol. Briefly  polyA RNA was purified from 1000 ng of total RNA using oligo dT beads Invitrogen. Extracted RNA was first fragmented  then followed by reverse transcription  end repair  adenylation  adaptor ligation and subsequent PCR amplification. The final product was checked by size distribution and concentration using BioAnalyzer High Sensitivity DNA Kit Agilent and Kapa Library Quantification Kit Kapa Biosystems and then followed by pair end 2X 50 bp high throughput sequencing using HiSeq 2500 Illumina.,GEO Accession:GSM3934898,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina Genome Analyzer,,SRP213938,,,YueLab-RNA-Seq-Spleen-rep2_1.fastq.gz YueLab-RNA-Seq-Spleen-rep2_2.fastq.gz,fastq fastq,8309777463.0,41837414.0,GSM3934898 r1,0:98.87 1:99.75,A:2235106866;C:1723612712;G:1748992271;T:2601473305;N:592309,98,99,,,2235106866,1723612712,1748992271,2601473305,592309,SRX6422906,SRS5079696,SRA919194,GEO,"Feng Yue, Department of Biochemistry and Molecular Genetics, Northwestern University Feinberg School of Medicine",2,0.9718,0.97965,0.15676,0.11996,0.7347,0.73831,0.49813,0.50156,99,100,B,B,biological fallback assumption,illumina,early_illumina,unknown,poly_a,unknown,bulk,unknown,unknown,,United States,2019-07-09,Pharyngula,Embryo,Spleen,Hematopoietic System
53010,SRR9662029,SRX6422905,SRS5079695,SRP213938,PRJNA553572,A map of cis regulatory elements and 3D genome structures in zebrafish,GSE134055,Other,The zebrafish has been widely used for the study of human disease and development  as 70% of the protein coding genes are conserved between the two species. Annotation of functional control elements of the zebrafish genome  however  has lagged behind that of other model systems such as mouse and Drosophila. Based on multi omics approaches taken in the ENCODE and Roadmap Epigenomics projects  we performed RNA seq  ATAC seq  ChIP seq and Hi C experiments in ten adult and two embryonic tissues to generate a comprehensive map of transcriptomes and regulatory elements in the zebrafish Tuebingen reference strain. Overall  we have identified 235 596 cis regulatory elements  which potentially shape the tissue specific and developmental stage specific gene expression in zebrafish. A comparison of zebrafish  human  and mouse regulatory elements allowed us to identify both evolutionarily conserved and species specific regulatory sequences. Furthermore  through the analysis of Hi C data in zebrafish brain and muscle  we observed different levels of 3D genome organization  including compartment  topological associating domains TADs  and chromatin loops in zebrafish. A subset of TADs are deeply conserved between zebrafish and human. This work provides an additional epigenomic anchor for the functional annotation of vertebrate genomes and the study of evolutionally conserved elements of 3D genome organization. Overall design: 13 tissues from adult and  embryonic stage were examined using ChIP Seq H3K27ac and H3K4me3  RNA Seq  11 of them were examined using ATAC seq  WGBS and ChIP seq H3K9me3 and H3K9me2  and one scATAC seq in brain. Additionally we performed HiC experiments in adult muscle and brain. Please note that  for the samples GSM4661977 GSM4662088  [1] each processed data generated from both replicates is linked to the corresponding *rep1 sample records [2] the input sample used for each ChIP sample is indicated in the description field in the corresponding input sample records.,,pubmed:33239788;pubmed:35649578,,YueLab RNA Seq Spleen rep1,GSM3934897,,source name:Tissue|strain:Tuebingen|tissue:Spleen,YueLab RNA Seq Spleen rep1,RNA seq reads were aligned to zv10 genome assembly using STAR; ChIP seq and ATAC seq reads were aligned to zv10 genome assembly using BWA HiC reads were aligned to zv10 genome assembly using Bowtie2 The TPM value of gene expression was caculated using RSEM ChIP seq and ATAC seq peaks were called using MACS2 with the following  setting: ChIP seq q value <10e 2  p value<10e 5  Change>1 FC>2. ATAC seq: q value<10e 2 and p value<10e 5 HiC matrix was generated using HiC Pro Genome build: zv10 Supplementary files format and content: tab delimited text files include TPM values for each Sample; the narrowPeak files included the peaks for each Sample; The .hic file were the matrix of Hi C for each Sample.**All replicates were merged,Tissue,,For each RNA seq experiment  the same tissues combined from at least two Tuebingen fish were used as one replicate. For embryonic trunk  ten 1 dpf fish were dechorionated with pronase and trunk were cut off for RNA seq. For embryonic neuron  green cells from TgHuc:Kaede cells were sorted by FACS and approxinately 20 000 cells were used for one replicate. The tissue RNA was extracted from Trizol® according to the protocol Invitrogen. The cDNA libraries were performed using SureSelect Strand Specific RNA Library Preparation Kit Agilent according to the manufacturer’s protocol. Briefly  polyA RNA was purified from 1000 ng of total RNA using oligo dT beads Invitrogen. Extracted RNA was first fragmented  then followed by reverse transcription  end repair  adenylation  adaptor ligation and subsequent PCR amplification. The final product was checked by size distribution and concentration using BioAnalyzer High Sensitivity DNA Kit Agilent and Kapa Library Quantification Kit Kapa Biosystems and then followed by pair end 2X 50 bp high throughput sequencing using HiSeq 2500 Illumina.,Embryonic and ault Tuebingen zebrafish were raised under standard laboratory conditions,strain:Tuebingen|tissue:Spleen,GSM3934897,GSM3934897: YueLab RNA Seq Spleen rep1; Danio rerio; RNA Seq,GSM3934897,,1,For each RNA seq experiment  the same tissues combined from at least two Tuebingen fish were used as one replicate. For embryonic trunk  ten 1 dpf fish were dechorionated with pronase and trunk were cut off for RNA seq. For embryonic neuron  green cells from TgHuc:Kaede cells were sorted by FACS and approxinately 20 000 cells were used for one replicate. The tissue RNA was extracted from Trizol® according to the protocol Invitrogen. The cDNA libraries were performed using SureSelect Strand Specific RNA Library Preparation Kit Agilent according to the manufacturer's protocol. Briefly  polyA RNA was purified from 1000 ng of total RNA using oligo dT beads Invitrogen. Extracted RNA was first fragmented  then followed by reverse transcription  end repair  adenylation  adaptor ligation and subsequent PCR amplification. The final product was checked by size distribution and concentration using BioAnalyzer High Sensitivity DNA Kit Agilent and Kapa Library Quantification Kit Kapa Biosystems and then followed by pair end 2X 50 bp high throughput sequencing using HiSeq 2500 Illumina.,GEO Accession:GSM3934897,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina Genome Analyzer,,SRP213938,,,YueLab-RNA-Seq-Spleen-rep1_1.fastq.gz YueLab-RNA-Seq-Spleen-rep1_2.fastq.gz,fastq fastq,1940987484.0,9748717.0,GSM3934897 r1,0:99.62 1:99.48,A:522271746;C:424963046;G:430836475;T:562779653;N:136564,99,99,,,522271746,424963046,430836475,562779653,136564,SRX6422905,SRS5079695,SRA919194,GEO,"Feng Yue, Department of Biochemistry and Molecular Genetics, Northwestern University Feinberg School of Medicine",2,0.97325,0.97976,0.13741,0.12217,0.72129,0.73261,0.50119,0.4956,100,99,B,B,biological fallback assumption,illumina,early_illumina,unknown,poly_a,unknown,bulk,unknown,unknown,,United States,2019-07-09,Pharyngula,Embryo,Spleen,Hematopoietic System
62766,SRR13374851,SRX9798198,SRS7982915,SRP300698,PRJNA690124,Investigation of Zebrafish Endogenous Retroviruses,PRJNA690124,Other,Shed Light on Zebrafish Endogenous Retrovirus like elements: Survey of the Composition  Phylogeny and Expression,,,,,Spleen3,,strain:AB|dev stage:adult|sex:male and female|tissue:spleen|health state:health|replicate:replicate = biological replicate 3|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish: adult: spleen,T21,T21,RNA extracted from tissue,,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP300698,,,Spleen3.R1.fastq.gz Spleen3.R2.fastq.gz,fastq fastq,6944249608.0,22994204.0,Spleen3.R1.fastq.gz,0:151 1:151,A:1791694656;C:1670042370;G:1729203945;T:1753264854;N:43783,151,151,,,1791694656,1670042370,1729203945,1753264854,43783,SRX9798198,SRS7982915,SRA1181129,Zhejiang University|College of life science,Zhejiang University,2,0.94268,0.895,0.04275,0.0401,0.75716,0.76414,0.44872,0.45146,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,China,2021-01-06,Adult,Adult,Spleen,Hematopoietic System
62768,SRR13374853,SRX9798196,SRS7982913,SRP300698,PRJNA690124,Investigation of Zebrafish Endogenous Retroviruses,PRJNA690124,Other,Shed Light on Zebrafish Endogenous Retrovirus like elements: Survey of the Composition  Phylogeny and Expression,,,,,Spleen2,,strain:AB|dev stage:adult|sex:male and female|tissue:spleen|health state:health|replicate:replicate = biological replicate 2|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish: adult: spleen,T20,T20,RNA extracted from tissue,,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP300698,,,Spleen2.R1.fastq.gz Spleen2.R2.fastq.gz,fastq fastq,6804474646.0,22531373.0,Spleen2.R1.fastq.gz,0:151 1:151,A:1776770612;C:1626287076;G:1682882382;T:1718492267;N:42309,151,151,,,1776770612,1626287076,1682882382,1718492267,42309,SRX9798196,SRS7982913,SRA1181129,Zhejiang University|College of life science,Zhejiang University,2,0.93567,0.88963,0.04922,0.04623,0.74257,0.75041,0.50033,0.4547,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,China,2021-01-06,Adult,Adult,Spleen,Hematopoietic System
62769,SRR13374854,SRX9798195,SRS7982912,SRP300698,PRJNA690124,Investigation of Zebrafish Endogenous Retroviruses,PRJNA690124,Other,Shed Light on Zebrafish Endogenous Retrovirus like elements: Survey of the Composition  Phylogeny and Expression,,,,,Spleen1,,strain:AB|dev stage:adult|sex:male and female|tissue:spleen|health state:health|replicate:replicate = biological replicate 1|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish: adult: spleen,T19,T19,RNA extracted from tissue,,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP300698,,,Spleen1.R1.fastq.gz Spleen1.R2.fastq.gz,fastq fastq,6574224108.0,21768954.0,Spleen1.R1.fastq.gz,0:151 1:151,A:1751438977;C:1525086872;G:1586987485;T:1710661856;N:48918,151,151,,,1751438977,1525086872,1586987485,1710661856,48918,SRX9798195,SRS7982912,SRA1181129,Zhejiang University|College of life science,Zhejiang University,2,0.92679,0.88014,0.04944,0.04681,0.75199,0.75651,0.53852,0.53834,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,China,2021-01-06,Adult,Adult,Spleen,Hematopoietic System
62776,SRR13376235,SRX9799599,SRS7984252,SRP300743,PRJNA690234,Expression of zebrafish endogenous retroviruses in response to SVCV infection,PRJNA690234,Other,Shed Light on Zebrafish Endogenous Retrovirus like elements: Survey of the Composition  Phylogeny and Expression,,,,,Control Spleen 3,,strain:AB|dev stage:adult|sex:male and female|tissue:spleen|treatment:injected with PBS|replicate:replicate = replicate 3|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish: spleen: PBS,T30,T30,adult zebrafish were injected with PBS  RNA were extracted from spleen at xxxhpi,,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP300743,,,Control_Spleen_3.R1.fastq.gz Control_Spleen_3.R2.fastq.gz,fastq fastq,7550432766.0,25001433.0,Control Spleen 3.R1.fastq.gz,0:151 1:151,A:2018422580;C:1742507793;G:1796580720;T:1992799700;N:121973,151,151,,,2018422580,1742507793,1796580720,1992799700,121973,SRX9799599,SRS7984252,SRA1181241,Zhejiang University|College of life science,Zhejiang University,2,0.92068,0.92127,0.06337,0.06399,0.68874,0.68822,0.47658,0.47523,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,China,2021-01-07,Adult,Adult,Spleen,Hematopoietic System
62777,SRR13376236,SRX9799598,SRS7984251,SRP300743,PRJNA690234,Expression of zebrafish endogenous retroviruses in response to SVCV infection,PRJNA690234,Other,Shed Light on Zebrafish Endogenous Retrovirus like elements: Survey of the Composition  Phylogeny and Expression,,,,,Control Spleen 2,,strain:AB|dev stage:adult|sex:male and female|tissue:spleen|treatment:injected with PBS|replicate:replicate = replicate 2|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish: spleen: PBS,T29,T29,adult zebrafish were injected with PBS  RNA were extracted from spleen at xxxhpi,,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP300743,,,Control_Spleen_2.R1.fastq.gz Control_Spleen_2.R2.fastq.gz,fastq fastq,10488973400.0,34731700.0,Control Spleen 2.R1.fastq.gz,0:151 1:151,A:2757134301;C:2413662609;G:2634278699;T:2683729731;N:168060,151,151,,,2757134301,2413662609,2634278699,2683729731,168060,SRX9799598,SRS7984251,SRA1181241,Zhejiang University|College of life science,Zhejiang University,2,0.93334,0.93231,0.06005,0.05979,0.70532,0.70532,0.50937,0.50468,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,China,2021-01-07,Adult,Adult,Spleen,Hematopoietic System
62778,SRR13376237,SRX9799597,SRS7984250,SRP300743,PRJNA690234,Expression of zebrafish endogenous retroviruses in response to SVCV infection,PRJNA690234,Other,Shed Light on Zebrafish Endogenous Retrovirus like elements: Survey of the Composition  Phylogeny and Expression,,,,,Control Spleen 1,,strain:AB|dev stage:adult|sex:male and female|tissue:spleen|treatment:injected with PBS|replicate:replicate = replicate 1|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish: spleen: PBS,T28,T28,adult zebrafish were injected with PBS  RNA were extracted from spleen at xxxhpi,,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP300743,,,Control_Spleen_1.R1.fastq.gz Control_Spleen_1.R2.fastq.gz,fastq fastq,6933543406.0,22958753.0,Control Spleen 1.R1.fastq.gz,0:151 1:151,A:1839332870;C:1592223896;G:1685065238;T:1816810379;N:111023,151,151,,,1839332870,1592223896,1685065238,1816810379,111023,SRX9799597,SRS7984250,SRA1181241,Zhejiang University|College of life science,Zhejiang University,2,0.9163,0.91686,0.04728,0.04769,0.69593,0.69615,0.46482,0.46496,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,China,2021-01-07,Adult,Adult,Spleen,Hematopoietic System
62783,SRR13376242,SRX9799592,SRS7984245,SRP300743,PRJNA690234,Expression of zebrafish endogenous retroviruses in response to SVCV infection,PRJNA690234,Other,Shed Light on Zebrafish Endogenous Retrovirus like elements: Survey of the Composition  Phylogeny and Expression,,,,,SVCV Spleen 3,,strain:AB|dev stage:adult|sex:male and female|tissue:spleen|treatment:injected with SVCV|replicate:replicate = replicate 3|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish: spleen: SVCV,T39,T39,adult zebrafish were injected with SVCV  RNA were extracted from spleen at xxxhpi,,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP300743,,,SVCV_Spleen_3.R1.fastq.gz SVCV_Spleen_3.R2.fastq.gz,fastq fastq,6444503028.0,21339414.0,SVCV Spleen 3.R1.fastq.gz,0:151 1:151,A:1714203208;C:1461493363;G:1592840158;T:1675864173;N:102126,151,151,,,1714203208,1461493363,1592840158,1675864173,102126,SRX9799592,SRS7984245,SRA1181241,Zhejiang University|College of life science,Zhejiang University,2,0.91385,0.91498,0.06229,0.06243,0.70701,0.70832,0.49181,0.48908,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,China,2021-01-07,Adult,Adult,Spleen,Hematopoietic System
62784,SRR13376243,SRX9799591,SRS7984244,SRP300743,PRJNA690234,Expression of zebrafish endogenous retroviruses in response to SVCV infection,PRJNA690234,Other,Shed Light on Zebrafish Endogenous Retrovirus like elements: Survey of the Composition  Phylogeny and Expression,,,,,SVCV Spleen 2,,strain:AB|dev stage:adult|sex:male and female|tissue:spleen|treatment:injected with SVCV|replicate:replicate = replicate 2|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish: spleen: SVCV,T38,T38,adult zebrafish were injected with SVCV  RNA were extracted from spleen at xxxhpi,,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP300743,,,SVCV_Spleen_2.R1.fastq.gz SVCV_Spleen_2.R2.fastq.gz,fastq fastq,7381144250.0,24440875.0,SVCV Spleen 2.R1.fastq.gz,0:151 1:151,A:1990654513;C:1680305155;G:1777929120;T:1932136628;N:118834,151,151,,,1990654513,1680305155,1777929120,1932136628,118834,SRX9799591,SRS7984244,SRA1181241,Zhejiang University|College of life science,Zhejiang University,2,0.91045,0.90637,0.06763,0.06729,0.69828,0.69867,0.48254,0.48277,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,China,2021-01-07,Adult,Adult,Spleen,Hematopoietic System
62785,SRR13376244,SRX9799590,SRS7984243,SRP300743,PRJNA690234,Expression of zebrafish endogenous retroviruses in response to SVCV infection,PRJNA690234,Other,Shed Light on Zebrafish Endogenous Retrovirus like elements: Survey of the Composition  Phylogeny and Expression,,,,,SVCV Spleen 1,,strain:AB|dev stage:adult|sex:male and female|tissue:spleen|treatment:injected with SVCV|replicate:replicate = replicate 1|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of zebrafish: spleen: SVCV,T37,T37,adult zebrafish were injected with SVCV  RNA were extracted from spleen at xxxhpi,,,RNA-Seq,TRANSCRIPTOMIC,cDNA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP300743,,,SVCV_Spleen_1.R1.fastq.gz SVCV_Spleen_1.R2.fastq.gz,fastq fastq,6497966994.0,21516447.0,SVCV Spleen 1.R1.fastq.gz,0:151 1:151,A:1740978204;C:1501650940;G:1547916054;T:1707317926;N:103870,151,151,,,1740978204,1501650940,1547916054,1707317926,103870,SRX9799590,SRS7984243,SRA1181241,Zhejiang University|College of life science,Zhejiang University,2,0.9219,0.92023,0.06415,0.06403,0.70303,0.70418,0.45339,0.45701,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,cdna_unspecified,unknown,bulk,unknown,unknown,,China,2021-01-07,Adult,Adult,Spleen,Hematopoietic System
63070,SRR13587384,SRX9982079,SRS8153594,SRP303929,PRJNA698005,Danio rerio Raw sequence reads,PRJNA698005,Whole Genome Sequencing,Danio rerio Raw RNA sequence reads,,,,Model organism or animal sample from Danio rerio,The spleen of Danio rerio,,isolate:river|age:adult|sex:not collected|tissue:spleen|BioSampleModel:Model organism or animal,,,,,,,,,9ZS,9ZS,9ZS,The spleen experiment repeat 3 of Gobiocypris rarus,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,BGISEQ,BGISEQ-500,,SRP303929,,,9ZS_1.fq.gz 9ZS_2.fq.gz,fastq fastq,8205802500.0,54705350.0,9ZS 1.fq.gz,0:150 1:150,A:2280163497;C:1814966062;G:1803870112;T:2306802829;N:0,150,150,,,2280163497,1814966062,1803870112,2306802829,0,SRX9982079,SRS8153594,SRA1189624,Center for Ecological and Environmental Sciences|Northwestern Polytechnical University,Center for Ecological and Environmental Sciences,1,0.90674,,0.10519,,0.73225,,0.50894,,150,,B,,usable mapping rate,bgi,bgi,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2021-01-30,Adult,Adult,Spleen,Hematopoietic System
63071,SRR13587385,SRX9982078,SRS8153594,SRP303929,PRJNA698005,Danio rerio Raw sequence reads,PRJNA698005,Whole Genome Sequencing,Danio rerio Raw RNA sequence reads,,,,Model organism or animal sample from Danio rerio,The spleen of Danio rerio,,isolate:river|age:adult|sex:not collected|tissue:spleen|BioSampleModel:Model organism or animal,,,,,,,,,24ZS,24ZS,24ZS,The spleen control repeat 3 of Gobiocypris rarus,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,BGISEQ,BGISEQ-500,,SRP303929,,,24ZS_1.fq.gz 24ZS_2.fq.gz,fastq fastq,8279731500.0,55198210.0,24ZS 1.fq.gz,0:150 1:150,A:2228188611;C:1909382391;G:1884421138;T:2257483634;N:255726,150,150,,,2228188611,1909382391,1884421138,2257483634,255726,SRX9982078,SRS8153594,SRA1189624,Center for Ecological and Environmental Sciences|Northwestern Polytechnical University,Center for Ecological and Environmental Sciences,1,0.91852,,0.09459,,0.74539,,0.51194,,150,,B,,usable mapping rate,bgi,bgi,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2021-01-30,Adult,Adult,Spleen,Hematopoietic System
63072,SRR13587386,SRX9982077,SRS8153594,SRP303929,PRJNA698005,Danio rerio Raw sequence reads,PRJNA698005,Whole Genome Sequencing,Danio rerio Raw RNA sequence reads,,,,Model organism or animal sample from Danio rerio,The spleen of Danio rerio,,isolate:river|age:adult|sex:not collected|tissue:spleen|BioSampleModel:Model organism or animal,,,,,,,,,8ZS,8ZS,8ZS,The spleen experiment repeat 2 of Gobiocypris rarus,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,BGISEQ,BGISEQ-500,,SRP303929,,,8ZS_1.fq.gz 8ZS_2.fq.gz,fastq fastq,8376961800.0,55846412.0,8ZS 1.fq.gz,0:150 1:150,A:2362175703;C:1822140642;G:1805332183;T:2386668646;N:644626,150,150,,,2362175703,1822140642,1805332183,2386668646,644626,SRX9982077,SRS8153594,SRA1189624,Center for Ecological and Environmental Sciences|Northwestern Polytechnical University,Center for Ecological and Environmental Sciences,1,0.89088,,0.11828,,0.74138,,0.51485,,150,,B,,usable mapping rate,bgi,bgi,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2021-01-30,Adult,Adult,Spleen,Hematopoietic System
63073,SRR13587387,SRX9982076,SRS8153594,SRP303929,PRJNA698005,Danio rerio Raw sequence reads,PRJNA698005,Whole Genome Sequencing,Danio rerio Raw RNA sequence reads,,,,Model organism or animal sample from Danio rerio,The spleen of Danio rerio,,isolate:river|age:adult|sex:not collected|tissue:spleen|BioSampleModel:Model organism or animal,,,,,,,,,19Z S,19Z S,19Z S,The spleen control repeat 2 of Gobiocypris rarus,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,BGISEQ,BGISEQ-500,,SRP303929,,,19Z_S_1.fq.gz 19Z_S_2.fq.gz,fastq fastq,8390649600.0,55937664.0,19Z S 1.fq.gz,0:150 1:150,A:2302584143;C:1877946699;G:1869505731;T:2340091695;N:521332,150,150,,,2302584143,1877946699,1869505731,2340091695,521332,SRX9982076,SRS8153594,SRA1189624,Center for Ecological and Environmental Sciences|Northwestern Polytechnical University,Center for Ecological and Environmental Sciences,1,0.89383,,0.11774,,0.73359,,0.4805,,150,,B,,usable mapping rate,bgi,bgi,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2021-01-30,Adult,Adult,Spleen,Hematopoietic System
63074,SRR13587388,SRX9982075,SRS8153594,SRP303929,PRJNA698005,Danio rerio Raw sequence reads,PRJNA698005,Whole Genome Sequencing,Danio rerio Raw RNA sequence reads,,,,Model organism or animal sample from Danio rerio,The spleen of Danio rerio,,isolate:river|age:adult|sex:not collected|tissue:spleen|BioSampleModel:Model organism or animal,,,,,,,,,10ZS,10ZS,10ZS,The spleen experiment repeat 1 of Gobiocypris rarus,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,BGISEQ,BGISEQ-500,,SRP303929,,,10ZS_1.fq.gz 10ZS_2.fq.gz,fastq fastq,8391962700.0,55946418.0,10ZS 1.fq.gz,0:150 1:150,A:2326501009;C:1860778012;G:1850272162;T:2354411517;N:0,150,150,,,2326501009,1860778012,1850272162,2354411517,0,SRX9982075,SRS8153594,SRA1189624,Center for Ecological and Environmental Sciences|Northwestern Polytechnical University,Center for Ecological and Environmental Sciences,1,0.907,,0.10692,,0.72809,,0.50685,,150,,B,,usable mapping rate,bgi,bgi,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2021-01-30,Adult,Adult,Spleen,Hematopoietic System
63075,SRR13587389,SRX9982074,SRS8153594,SRP303929,PRJNA698005,Danio rerio Raw sequence reads,PRJNA698005,Whole Genome Sequencing,Danio rerio Raw RNA sequence reads,,,,Model organism or animal sample from Danio rerio,The spleen of Danio rerio,,isolate:river|age:adult|sex:not collected|tissue:spleen|BioSampleModel:Model organism or animal,,,,,,,,,10Z S,10Z S,10Z S,The spleen control repeat 1 of Gobiocypris rarus,,,RNA-Seq,TRANSCRIPTOMIC,RANDOM,PAIRED,BGISEQ,BGISEQ-500,,SRP303929,,,10Z_S_1.fq.gz 10Z_S_2.fq.gz,fastq fastq,8375904900.0,55839366.0,10Z S 1.fq.gz,0:150 1:150,A:2357505118;C:1814876503;G:1806400464;T:2396638627;N:484188,150,150,,,2357505118,1814876503,1806400464,2396638627,484188,SRX9982074,SRS8153594,SRA1189624,Center for Ecological and Environmental Sciences|Northwestern Polytechnical University,Center for Ecological and Environmental Sciences,1,0.89619,,0.12161,,0.73878,,0.52421,,150,,B,,usable mapping rate,bgi,bgi,unknown,random_priming,unknown,bulk,unknown,unknown,,China,2021-01-30,Adult,Adult,Spleen,Hematopoietic System
71972,SRR22163682,SRX18142568,SRS15644032,SRP405990,PRJNA897077,Transcriptome of zebrafish Danio rerio,PRJNA897077,Other,Zebrafish Danio rerio have been used as a model organism to study innate immune system and hostpathogen interactions. Until now  the information related to the immune system against A. hydrophila of zebrafish and the treatment by probiotics is incomplete. To increase knowledge of the molecular mechanisms of the host defense against A. hydrophila and provide evidence that antibiotics can replace by probiotics  we conducted transcriptome analysis of spleen in zebrafish 48 h post infection and treatment by Lactococcus lactis post 4h post infection via sequencing.,,,,,C3,,strain:not applicable|age:not collected|sex:not collected|tissue:spleen|treatment:control|replicate:replicate3|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of Danio rerio,C3,C3,control group,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP405990,,,C3.R1.fastq.gz C3.R2.fastq.gz,fastq fastq,6777299176.0,22441388.0,C3.R1.fastq.gz,0:151 1:151,A:1869146927;C:1513142912;G:1565477798;T:1829395893;N:135646,151,151,,,1869146927,1513142912,1565477798,1829395893,135646,SRX18142568,SRS15644032,SRA1532870,Kunming University of Science and Technology|Faculty of Life Science and Technology,Kunming University of Science and Technology,2,0.91581,0.91452,0.09416,0.09344,0.71167,0.71338,0.50247,0.50311,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-11-02,Undetermined,Undetermined,Spleen,Hematopoietic System
71973,SRR22163683,SRX18142567,SRS15644031,SRP405990,PRJNA897077,Transcriptome of zebrafish Danio rerio,PRJNA897077,Other,Zebrafish Danio rerio have been used as a model organism to study innate immune system and hostpathogen interactions. Until now  the information related to the immune system against A. hydrophila of zebrafish and the treatment by probiotics is incomplete. To increase knowledge of the molecular mechanisms of the host defense against A. hydrophila and provide evidence that antibiotics can replace by probiotics  we conducted transcriptome analysis of spleen in zebrafish 48 h post infection and treatment by Lactococcus lactis post 4h post infection via sequencing.,,,,,C2,,strain:not applicable|age:not collected|sex:not collected|tissue:spleen|treatment:control|replicate:replicate2|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of Danio rerio,C2,C2,control group,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP405990,,,C2.R1.fastq.gz C2.R2.fastq.gz,fastq fastq,6956425644.0,23034522.0,C2.R1.fastq.gz,0:151 1:151,A:1847551873;C:1616308106;G:1662475314;T:1829952767;N:137584,151,151,,,1847551873,1616308106,1662475314,1829952767,137584,SRX18142567,SRS15644031,SRA1532870,Kunming University of Science and Technology|Faculty of Life Science and Technology,Kunming University of Science and Technology,2,0.93033,0.9312,0.056,0.05619,0.71261,0.71376,0.4668,0.47014,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-11-02,Undetermined,Undetermined,Spleen,Hematopoietic System
71974,SRR22163684,SRX18142566,SRS15644030,SRP405990,PRJNA897077,Transcriptome of zebrafish Danio rerio,PRJNA897077,Other,Zebrafish Danio rerio have been used as a model organism to study innate immune system and hostpathogen interactions. Until now  the information related to the immune system against A. hydrophila of zebrafish and the treatment by probiotics is incomplete. To increase knowledge of the molecular mechanisms of the host defense against A. hydrophila and provide evidence that antibiotics can replace by probiotics  we conducted transcriptome analysis of spleen in zebrafish 48 h post infection and treatment by Lactococcus lactis post 4h post infection via sequencing.,,,,,C1,,strain:not applicable|age:not collected|sex:not collected|tissue:spleen|treatment:control|replicate:replicate1|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of Danio rerio,C1,C1,control group,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP405990,,,C1.R1.fastq.gz C1.R2.fastq.gz,fastq fastq,6218689172.0,20591686.0,C1.R1.fastq.gz,0:151 1:151,A:1651743119;C:1444992966;G:1490934383;T:1630891482;N:127222,151,151,,,1651743119,1444992966,1490934383,1630891482,127222,SRX18142566,SRS15644030,SRA1532870,Kunming University of Science and Technology|Faculty of Life Science and Technology,Kunming University of Science and Technology,2,0.93571,0.93627,0.03427,0.0346,0.73336,0.73401,0.47064,0.47601,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-11-02,Undetermined,Undetermined,Spleen,Hematopoietic System
71975,SRR22163685,SRX18142565,SRS15644029,SRP405990,PRJNA897077,Transcriptome of zebrafish Danio rerio,PRJNA897077,Other,Zebrafish Danio rerio have been used as a model organism to study innate immune system and hostpathogen interactions. Until now  the information related to the immune system against A. hydrophila of zebrafish and the treatment by probiotics is incomplete. To increase knowledge of the molecular mechanisms of the host defense against A. hydrophila and provide evidence that antibiotics can replace by probiotics  we conducted transcriptome analysis of spleen in zebrafish 48 h post infection and treatment by Lactococcus lactis post 4h post infection via sequencing.,,,,,B3,,strain:not applicable|age:not collected|sex:not collected|tissue:spleen|treatment:challenge|replicate:replicate3|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of Danio rerio,B3,B3,challenge group,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP405990,,,B3.R1.fastq.gz B3.R2.fastq.gz,fastq fastq,7958268062.0,26351881.0,B3.R1.fastq.gz,0:151 1:151,A:2067039750;C:1894612680;G:1943559820;T:2052891379;N:164433,151,151,,,2067039750,1894612680,1943559820,2052891379,164433,SRX18142565,SRS15644029,SRA1532870,Kunming University of Science and Technology|Faculty of Life Science and Technology,Kunming University of Science and Technology,2,0.93754,0.93809,0.03309,0.03347,0.71762,0.71731,0.49012,0.4888,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-11-02,Undetermined,Undetermined,Spleen,Hematopoietic System
71976,SRR22163686,SRX18142564,SRS15644028,SRP405990,PRJNA897077,Transcriptome of zebrafish Danio rerio,PRJNA897077,Other,Zebrafish Danio rerio have been used as a model organism to study innate immune system and hostpathogen interactions. Until now  the information related to the immune system against A. hydrophila of zebrafish and the treatment by probiotics is incomplete. To increase knowledge of the molecular mechanisms of the host defense against A. hydrophila and provide evidence that antibiotics can replace by probiotics  we conducted transcriptome analysis of spleen in zebrafish 48 h post infection and treatment by Lactococcus lactis post 4h post infection via sequencing.,,,,,B2,,strain:not applicable|age:not collected|sex:not collected|tissue:spleen|treatment:challenge|replicate:replicate2|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of Danio rerio,B2,B2,challenge group,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP405990,,,B2.R1.fastq.gz B2.R2.fastq.gz,fastq fastq,7071097158.0,23414229.0,B2.R1.fastq.gz,0:151 1:151,A:1862299896;C:1658740196;G:1713471478;T:1836444697;N:140891,151,151,,,1862299896,1658740196,1713471478,1836444697,140891,SRX18142564,SRS15644028,SRA1532870,Kunming University of Science and Technology|Faculty of Life Science and Technology,Kunming University of Science and Technology,2,0.94335,0.94369,0.04139,0.04172,0.80405,0.80415,0.39649,0.39674,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-11-02,Undetermined,Undetermined,Spleen,Hematopoietic System
71977,SRR22163687,SRX18142563,SRS15644027,SRP405990,PRJNA897077,Transcriptome of zebrafish Danio rerio,PRJNA897077,Other,Zebrafish Danio rerio have been used as a model organism to study innate immune system and hostpathogen interactions. Until now  the information related to the immune system against A. hydrophila of zebrafish and the treatment by probiotics is incomplete. To increase knowledge of the molecular mechanisms of the host defense against A. hydrophila and provide evidence that antibiotics can replace by probiotics  we conducted transcriptome analysis of spleen in zebrafish 48 h post infection and treatment by Lactococcus lactis post 4h post infection via sequencing.,,,,,B1,,strain:not applicable|age:not collected|sex:not collected|tissue:spleen|treatment:challenge|replicate:replicate1|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of Danio rerio,B1,B1,challenge group,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP405990,,,B1.R1.fastq.gz B1.R2.fastq.gz,fastq fastq,7597788178.0,25158239.0,B1.R1.fastq.gz,0:151 1:151,A:1986638730;C:1797302173;G:1839273564;T:1974418679;N:155032,151,151,,,1986638730,1797302173,1839273564,1974418679,155032,SRX18142563,SRS15644027,SRA1532870,Kunming University of Science and Technology|Faculty of Life Science and Technology,Kunming University of Science and Technology,2,0.93891,0.93921,0.04922,0.04888,0.74552,0.74501,0.48725,0.49058,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-11-02,Undetermined,Undetermined,Spleen,Hematopoietic System
71978,SRR22163688,SRX18142562,SRS15644026,SRP405990,PRJNA897077,Transcriptome of zebrafish Danio rerio,PRJNA897077,Other,Zebrafish Danio rerio have been used as a model organism to study innate immune system and hostpathogen interactions. Until now  the information related to the immune system against A. hydrophila of zebrafish and the treatment by probiotics is incomplete. To increase knowledge of the molecular mechanisms of the host defense against A. hydrophila and provide evidence that antibiotics can replace by probiotics  we conducted transcriptome analysis of spleen in zebrafish 48 h post infection and treatment by Lactococcus lactis post 4h post infection via sequencing.,,,,,A3,,strain:not applicable|age:not collected|sex:not collected|tissue:spleen|treatment:treatment|replicate:replicate3|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of Danio rerio,A3,A3,treatment group,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP405990,,,A3.R1.fastq.gz A3.R2.fastq.gz,fastq fastq,8674550152.0,28723676.0,A3.R1.fastq.gz,0:151 1:151,A:2234032232;C:2083164440;G:2128058461;T:2229111717;N:183302,151,151,,,2234032232,2083164440,2128058461,2229111717,183302,SRX18142562,SRS15644026,SRA1532870,Kunming University of Science and Technology|Faculty of Life Science and Technology,Kunming University of Science and Technology,2,0.93839,0.93828,0.01889,0.01887,0.73639,0.73724,0.48841,0.47397,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-11-02,Undetermined,Undetermined,Spleen,Hematopoietic System
71979,SRR22163689,SRX18142561,SRS15644025,SRP405990,PRJNA897077,Transcriptome of zebrafish Danio rerio,PRJNA897077,Other,Zebrafish Danio rerio have been used as a model organism to study innate immune system and hostpathogen interactions. Until now  the information related to the immune system against A. hydrophila of zebrafish and the treatment by probiotics is incomplete. To increase knowledge of the molecular mechanisms of the host defense against A. hydrophila and provide evidence that antibiotics can replace by probiotics  we conducted transcriptome analysis of spleen in zebrafish 48 h post infection and treatment by Lactococcus lactis post 4h post infection via sequencing.,,,,,A2,,strain:not applicable|age:not collected|sex:not collected|tissue:spleen|treatment:treatment|replicate:replicate2|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of Danio rerio,A2,A2,treatment group,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP405990,,,A2.R1.fastq.gz A2.R2.fastq.gz,fastq fastq,7383660816.0,24449208.0,A2.R1.fastq.gz,0:151 1:151,A:1917884453;C:1759507724;G:1796259178;T:1909857526;N:151935,151,151,,,1917884453,1759507724,1796259178,1909857526,151935,SRX18142561,SRS15644025,SRA1532870,Kunming University of Science and Technology|Faculty of Life Science and Technology,Kunming University of Science and Technology,2,0.93853,0.93854,0.02662,0.02663,0.71435,0.7149,0.49509,0.49212,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-11-02,Undetermined,Undetermined,Spleen,Hematopoietic System
71980,SRR22163690,SRX18142560,SRS15644024,SRP405990,PRJNA897077,Transcriptome of zebrafish Danio rerio,PRJNA897077,Other,Zebrafish Danio rerio have been used as a model organism to study innate immune system and hostpathogen interactions. Until now  the information related to the immune system against A. hydrophila of zebrafish and the treatment by probiotics is incomplete. To increase knowledge of the molecular mechanisms of the host defense against A. hydrophila and provide evidence that antibiotics can replace by probiotics  we conducted transcriptome analysis of spleen in zebrafish 48 h post infection and treatment by Lactococcus lactis post 4h post infection via sequencing.,,,,,A1,,strain:not applicable|age:not collected|sex:not collected|tissue:spleen|treatment:treatment|replicate:replicate1|BioSampleModel:Model organism or animal,,,,,,,,,RNA seq of Danio rerio,A1,A1,treatment group,,,RNA-Seq,TRANSCRIPTOMIC,Oligo-dT,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP405990,,,A1.R1.fastq.gz A1.R2.fastq.gz,fastq fastq,7734454352.0,25610776.0,A1.R1.fastq.gz,0:151 1:151,A:2031967267;C:1817027018;G:1866115793;T:2019187811;N:156463,151,151,,,2031967267,1817027018,1866115793,2019187811,156463,SRX18142560,SRS15644024,SRA1532870,Kunming University of Science and Technology|Faculty of Life Science and Technology,Kunming University of Science and Technology,2,0.93755,0.93728,0.03692,0.03688,0.71664,0.71693,0.48577,0.48719,151,151,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-11-02,Undetermined,Undetermined,Spleen,Hematopoietic System
76377,SRR24883271,SRX20646607,SRS17944844,SRP442003,PRJNA982106,DEHP exposed zebrafish Danio rerio spleen Transcriptome,PRJNA982106,Other,Investigating alterations in spleen gene expression profiles following DEHP exposure in adult zebrafish,,,,exposure3,sample6,,isolate:missing|breed:danio rerio|age:3 month|dev stage:adult|collection date:2022 09 25|geo loc name:Not collected|sex:not applicable|tissue:spleen|sample type:tissue sample|treatment:DEHP|tmp:DEHP3|BioSampleModel:Model organism or animal,,,,,,,,,spleen sample,sample6,sample6,exposure,,,RNA-Seq,TRANSCRIPTOMIC,RT-PCR,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP442003,,,DEHP3.R2.fq.gz DEHP3.R1.fq.gz,fastq fastq,11043658500.0,36812195.0,DEHP3.R1.fq.gz,0:150 1:150,A:2929672242;C:2583571684;G:2658620610;T:2871678831;N:115133,150,150,,,2929672242,2583571684,2658620610,2871678831,115133,SRX20646607,SRS17944844,SRA1652098,Northeast Agricultural University|College of Resources and Environment,Northeast Agricultural University,2,0.92543,0.92492,0.09404,0.09379,0.71904,0.72139,0.51682,0.51908,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2023-06-09,Adult,Adult,Spleen,Hematopoietic System
76378,SRR24883272,SRX20646606,SRS17944845,SRP442003,PRJNA982106,DEHP exposed zebrafish Danio rerio spleen Transcriptome,PRJNA982106,Other,Investigating alterations in spleen gene expression profiles following DEHP exposure in adult zebrafish,,,,exposure2,sample5,,isolate:missing|breed:danio rerio|age:3 month|dev stage:adult|collection date:2022 09 25|geo loc name:Not collected|sex:not applicable|tissue:spleen|sample type:tissue sample|treatment:DEHP|tmp:DEHP 2|BioSampleModel:Model organism or animal,,,,,,,,,spleen sample,sample5,sample5,exposure,,,RNA-Seq,TRANSCRIPTOMIC,RT-PCR,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP442003,,,DEHP2.R1.fq.gz DEHP2.R2.fq.gz,fastq fastq,11197312500.0,37324375.0,DEHP2.R1.fq.gz,0:150 1:150,A:3003525993;C:2587094762;G:2660240359;T:2946337086;N:114300,150,150,,,3003525993,2587094762,2660240359,2946337086,114300,SRX20646606,SRS17944845,SRA1652098,Northeast Agricultural University|College of Resources and Environment,Northeast Agricultural University,2,0.92402,0.92201,0.09244,0.09091,0.7153,0.71835,0.50728,0.51018,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2023-06-09,Adult,Adult,Spleen,Hematopoietic System
76379,SRR24883273,SRX20646605,SRS17944843,SRP442003,PRJNA982106,DEHP exposed zebrafish Danio rerio spleen Transcriptome,PRJNA982106,Other,Investigating alterations in spleen gene expression profiles following DEHP exposure in adult zebrafish,,,,exposure1,sample4,,isolate:missing|breed:danio rerio|age:3 month|dev stage:adult|collection date:2022 09 25|geo loc name:Not collected|sex:not applicable|tissue:spleen|sample type:tissue sample|treatment:DEHP|tmp:DEHP 1|BioSampleModel:Model organism or animal,,,,,,,,,spleen sample,sample4,sample4,exposure,,,RNA-Seq,TRANSCRIPTOMIC,RT-PCR,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP442003,,,DEHP1.R1.fq.gz DEHP1.R2.fq.gz,fastq fastq,11344567800.0,37815226.0,DEHP1.R1.fq.gz,0:150 1:150,A:3053207608;C:2620172281;G:2687329750;T:2983695188;N:162973,150,150,,,3053207608,2620172281,2687329750,2983695188,162973,SRX20646605,SRS17944843,SRA1652098,Northeast Agricultural University|College of Resources and Environment,Northeast Agricultural University,2,0.92192,0.9203,0.09048,0.08897,0.71553,0.7181,0.50378,0.50663,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2023-06-09,Adult,Adult,Spleen,Hematopoietic System
76380,SRR24883274,SRX20646604,SRS17944840,SRP442003,PRJNA982106,DEHP exposed zebrafish Danio rerio spleen Transcriptome,PRJNA982106,Other,Investigating alterations in spleen gene expression profiles following DEHP exposure in adult zebrafish,,,,con3,sample3,,isolate:missing|breed:danio rerio|age:3 month|dev stage:adult|collection date:2022 09 25|geo loc name:Not collected|sex:not applicable|tissue:spleen|sample type:tissue sample|treatment:control|tmp:ck 3|BioSampleModel:Model organism or animal,,,,,,,,,spleen sample,sample3,sample3,health,,,RNA-Seq,TRANSCRIPTOMIC,RT-PCR,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP442003,,,CK3.R1.fq.gz CK3.R2.fq.gz,fastq fastq,13659957000.0,45533190.0,CK3.R1.fq.gz,0:150 1:150,A:3694247259;C:3116013012;G:3220828993;T:3628760297;N:107439,150,150,,,3694247259,3116013012,3220828993,3628760297,107439,SRX20646604,SRS17944840,SRA1652098,Northeast Agricultural University|College of Resources and Environment,Northeast Agricultural University,2,0.92417,0.91872,0.07548,0.07393,0.73559,0.74211,0.44648,0.45163,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2023-06-09,Adult,Adult,Spleen,Hematopoietic System
76381,SRR24883275,SRX20646603,SRS17944842,SRP442003,PRJNA982106,DEHP exposed zebrafish Danio rerio spleen Transcriptome,PRJNA982106,Other,Investigating alterations in spleen gene expression profiles following DEHP exposure in adult zebrafish,,,,con2,sample2,,isolate:missing|breed:danio rerio|age:3 month|dev stage:adult|collection date:2022 09 25|geo loc name:Not collected|sex:not applicable|tissue:spleen|sample type:tissue sample|treatment:control|tmp:ck 2|BioSampleModel:Model organism or animal,,,,,,,,,spleen sample,sample2,sample2,health,,,RNA-Seq,TRANSCRIPTOMIC,RT-PCR,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP442003,,,CK2.R1.fq.gz CK2.R2.fq.gz,fastq fastq,11443825500.0,38146085.0,CK2.R1.fq.gz,0:150 1:150,A:3107712867;C:2604406715;G:2679598652;T:3051975001;N:132265,150,150,,,3107712867,2604406715,2679598652,3051975001,132265,SRX20646603,SRS17944842,SRA1652098,Northeast Agricultural University|College of Resources and Environment,Northeast Agricultural University,2,0.90432,0.92276,0.07243,0.07326,0.7363,0.73695,0.44003,0.42918,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2023-06-09,Adult,Adult,Spleen,Hematopoietic System
76382,SRR24883276,SRX20646602,SRS17944841,SRP442003,PRJNA982106,DEHP exposed zebrafish Danio rerio spleen Transcriptome,PRJNA982106,Other,Investigating alterations in spleen gene expression profiles following DEHP exposure in adult zebrafish,,,,con1,sample1,,isolate:missing|breed:danio rerio|age:3 month|dev stage:adult|collection date:2022 09 25|geo loc name:Not collected|sex:not applicable|tissue:spleen|sample type:tissue sample|treatment:control|tmp:ck 1|BioSampleModel:Model organism or animal,,,,,,,,,spleen sample,sample1,sample1,health,,,RNA-Seq,TRANSCRIPTOMIC,RT-PCR,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP442003,,,CK1.R2.fq.gz CK1.R1.fq.gz,fastq fastq,10285960200.0,34286534.0,CK1.R1.fq.gz,0:150 1:150,A:2798446182;C:2334487723;G:2403435339;T:2749453663;N:137293,150,150,,,2798446182,2334487723,2403435339,2749453663,137293,SRX20646602,SRS17944841,SRA1652098,Northeast Agricultural University|College of Resources and Environment,Northeast Agricultural University,2,0.92371,0.92147,0.07268,0.07094,0.733,0.73888,0.44215,0.43613,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,other,unknown,bulk,unknown,unknown,,China,2023-06-09,Adult,Adult,Spleen,Hematopoietic System