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 33837,SRR30763634,SRX26165999,SRS22710780,SRP534093,PRJNA1163532,Skin as outermost immune organ of vertebrates that elicits robust early immune responses post immunization with glycoprotein of spring viraemia of carp virus,PRJNA1163532,Whole Genome Sequencing,,,,,Skin con2,Skin con 3,,breed:zebrafish|age:6 month|collection date:2020 01 10|geo loc name:China: Yangling|sex:not collected|tissue:skin|treatment:Skin con 3|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish skin RNA seq Skin con 3,SK CON 3,SK CON 3,Zebrafish skin at control group,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP534093,,,Skin_con2_Clean_Data1.fq.gz Skin_con2_Clean_Data2.fq.gz,fastq fastq,6083362246.0,21717347.0,Skin con2 Clean Data1.fq.gz,0:140.06 1:140.05,A:1575684711;C:1458969719;G:1469933956;T:1578641539;N:132321,140,140,,,1575684711,1458969719,1469933956,1578641539,132321,SRX26165999,SRS22710780,SRA1977051,Northwest A&F University|College of Animal Science and Technology,Northwest A&F University,,,,,,,,,,,,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2024-09-22,Adult,Adult,Skin,Surface Structure 33838,SRR30763635,SRX26165998,SRS22710779,SRP534093,PRJNA1163532,Skin as outermost immune organ of vertebrates that elicits robust early immune responses post immunization with glycoprotein of spring viraemia of carp virus,PRJNA1163532,Whole Genome Sequencing,,,,,Skin con1,Skin con 2,,breed:zebrafish|age:6 month|collection date:2020 01 10|geo loc name:China: Yangling|sex:not collected|tissue:skin|treatment:Skin con 2|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish skin RNA seq Skin con 2,SK CON 2,SK CON 2,Zebrafish skin at control group,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP534093,,,Skin_con1_Clean_Data1.fq.gz Skin_con1_Clean_Data2.fq.gz,fastq fastq,5776524166.0,20610041.0,Skin con1 Clean Data1.fq.gz,0:140.14 1:140.13,A:1496887200;C:1385008310;G:1395131090;T:1499373290;N:124276,140,140,,,1496887200,1385008310,1395131090,1499373290,124276,SRX26165998,SRS22710779,SRA1977051,Northwest A&F University|College of Animal Science and Technology,Northwest A&F University,,,,,,,,,,,,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2024-09-22,Adult,Adult,Skin,Surface Structure 33839,SRR30763636,SRX26165997,SRS22710778,SRP534093,PRJNA1163532,Skin as outermost immune organ of vertebrates that elicits robust early immune responses post immunization with glycoprotein of spring viraemia of carp virus,PRJNA1163532,Whole Genome Sequencing,,,,,Skin con,Skin con 1,,breed:zebrafish|age:6 month|collection date:2020 01 10|geo loc name:China: Yangling|sex:not collected|tissue:skin|treatment:Skin con 1|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish skin RNA seq Skin con 1,SK CON 1,SK CON 1,Zebrafish skin at control group,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP534093,,,Skin_con_Clean_Data1.fq.gz Skin_con_Clean_Data2.fq.gz,fastq fastq,5304184337.0,18925504.0,Skin con Clean Data1.fq.gz,0:140.14 1:140.13,A:1400015654;C:1245459230;G:1267684230;T:1391013551;N:11672,140,140,,,1400015654,1245459230,1267684230,1391013551,11672,SRX26165997,SRS22710778,SRA1977051,Northwest A&F University|College of Animal Science and Technology,Northwest A&F University,,,,,,,,,,,,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2024-09-22,Adult,Adult,Skin,Surface Structure 33840,SRR30763637,SRX26165996,SRS22710777,SRP534093,PRJNA1163532,Skin as outermost immune organ of vertebrates that elicits robust early immune responses post immunization with glycoprotein of spring viraemia of carp virus,PRJNA1163532,Whole Genome Sequencing,,,,,Skin 3dpi2,Skin 3d 3,,breed:zebrafish|age:6 month|collection date:2020 01 10|geo loc name:China: Yangling|sex:not collected|tissue:skin|treatment:Skin 3dpi 3|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish skin RNA seq Skin 3d 3,SK 3D 3,SK 3D 3,Zebrafish skin at 3 dpv post immunization with glycoprotein of spring viraemia of carp virus,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP534093,,,Skin_3dpi2_Clean_Data1.fq.gz Skin_3dpi2_Clean_Data2.fq.gz,fastq fastq,5528962547.0,19717071.0,Skin 3dpi2 Clean Data1.fq.gz,0:140.21 1:140.20,A:1434889776;C:1319598036;G:1335801562;T:1438550030;N:123143,140,140,,,1434889776,1319598036,1335801562,1438550030,123143,SRX26165996,SRS22710777,SRA1977051,Northwest A&F University|College of Animal Science and Technology,Northwest A&F University,,,,,,,,,,,,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2024-09-22,Adult,Adult,Skin,Surface Structure 33841,SRR30763638,SRX26165995,SRS22710776,SRP534093,PRJNA1163532,Skin as outermost immune organ of vertebrates that elicits robust early immune responses post immunization with glycoprotein of spring viraemia of carp virus,PRJNA1163532,Whole Genome Sequencing,,,,,Skin 3dpi1,Skin 3d 2,,breed:zebrafish|age:6 month|collection date:2020 01 10|geo loc name:China: Yangling|sex:not collected|tissue:skin|treatment:Skin 3dpi 2|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish skin RNA seq Skin 3d 2,SK 3D 2,SK 3D 2,Zebrafish skin at 3 dpv post immunization with glycoprotein of spring viraemia of carp virus,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP534093,,,Skin_3dpi1_Clean_Data1.fq.gz Skin_3dpi1_Clean_Data2.fq.gz,fastq fastq,6045424568.0,21559158.0,Skin 3dpi1 Clean Data1.fq.gz,0:140.21 1:140.20,A:1566211023;C:1442845401;G:1464489674;T:1571745680;N:132790,140,140,,,1566211023,1442845401,1464489674,1571745680,132790,SRX26165995,SRS22710776,SRA1977051,Northwest A&F University|College of Animal Science and Technology,Northwest A&F University,,,,,,,,,,,,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2024-09-22,Adult,Adult,Skin,Surface Structure 33842,SRR30763639,SRX26165994,SRS22710775,SRP534093,PRJNA1163532,Skin as outermost immune organ of vertebrates that elicits robust early immune responses post immunization with glycoprotein of spring viraemia of carp virus,PRJNA1163532,Whole Genome Sequencing,,,,,Skin 3dpi,Skin 3d 1,,breed:zebrafish|age:6 month|collection date:2020 01 10|geo loc name:China: Yangling|sex:not collected|tissue:skin|treatment:Skin 3dpi 1|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish skin RNA seq Skin 3d 1,SK 3D 1,SK 3D 1,Zebrafish skin at 3 dpv post immunization with glycoprotein of spring viraemia of carp virus,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP534093,,,Skin_3dpi_Clean_Data1.fq.gz Skin_3dpi_Clean_Data2.fq.gz,fastq fastq,5398897838.0,19388025.0,Skin 3dpi Clean Data1.fq.gz,0:139.24 1:139.23,A:1434301676;C:1260747084;G:1277759027;T:1426077485;N:12566,139,139,,,1434301676,1260747084,1277759027,1426077485,12566,SRX26165994,SRS22710775,SRA1977051,Northwest A&F University|College of Animal Science and Technology,Northwest A&F University,,,,,,,,,,,,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2024-09-22,Adult,Adult,Skin,Surface Structure 33843,SRR30763640,SRX26165993,SRS22710774,SRP534093,PRJNA1163532,Skin as outermost immune organ of vertebrates that elicits robust early immune responses post immunization with glycoprotein of spring viraemia of carp virus,PRJNA1163532,Whole Genome Sequencing,,,,,Skin 1dpi2,Skin 1d 3,,breed:zebrafish|age:6 month|collection date:2020 01 10|geo loc name:China: Yangling|sex:not collected|tissue:skin|treatment:Skin 1dpi 3|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish skin RNA seq Skin 1d 3,SK 1D 3,SK 1D 3,Zebrafish skin at 1 dpv post immunization with glycoprotein of spring viraemia of carp virus,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP534093,,,Skin_1dpi2_Clean_Data1.fq.gz Skin_1dpi2_Clean_Data2.fq.gz,fastq fastq,6317753535.0,22527726.0,Skin 1dpi2 Clean Data1.fq.gz,0:140.23 1:140.22,A:1637469629;C:1508203339;G:1526532646;T:1645411954;N:135967,140,140,,,1637469629,1508203339,1526532646,1645411954,135967,SRX26165993,SRS22710774,SRA1977051,Northwest A&F University|College of Animal Science and Technology,Northwest A&F University,,,,,,,,,,,,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2024-09-22,Adult,Adult,Skin,Surface Structure 33844,SRR30763641,SRX26165992,SRS22710773,SRP534093,PRJNA1163532,Skin as outermost immune organ of vertebrates that elicits robust early immune responses post immunization with glycoprotein of spring viraemia of carp virus,PRJNA1163532,Whole Genome Sequencing,,,,,Skin 1dpi1,Skin 1d 2,,breed:zebrafish|age:6 month|collection date:2020 01 10|geo loc name:China: Yangling|sex:not collected|tissue:skin|treatment:Skin 1dpi 2|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish skin RNA seq Skin 1d 2,SK 1D 2,SK 1D 2,Zebrafish skin at 1 dpv post immunization with glycoprotein of spring viraemia of carp virus,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP534093,,,Skin_1dpi1_Clean_Data1.fq.gz Skin_1dpi1_Clean_Data2.fq.gz,fastq fastq,5665401221.0,20209478.0,Skin 1dpi1 Clean Data1.fq.gz,0:140.17 1:140.16,A:1463485728;C:1359900876;G:1372085350;T:1469804976;N:124291,140,140,,,1463485728,1359900876,1372085350,1469804976,124291,SRX26165992,SRS22710773,SRA1977051,Northwest A&F University|College of Animal Science and Technology,Northwest A&F University,,,,,,,,,,,,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2024-09-22,Adult,Adult,Skin,Surface Structure 33845,SRR30763642,SRX26165991,SRS22710772,SRP534093,PRJNA1163532,Skin as outermost immune organ of vertebrates that elicits robust early immune responses post immunization with glycoprotein of spring viraemia of carp virus,PRJNA1163532,Whole Genome Sequencing,,,,,Skin 1dpi,Skin 1d 1,,breed:zebrafish|age:6 month|collection date:2020 01 10|geo loc name:China: Yangling|sex:not collected|tissue:skin|treatment:Skin 1dpi 1|BioSampleModel:Model organism or animal,,,,,,,,,Zebrafish skin RNA seq Skin 1d 1,SK 1D 1,SK 1D 1,Zebrafish skin at 1 dpv post immunization with glycoprotein of spring viraemia of carp virus,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP534093,,,Skin_1dpi_Clean_Data1.fq.gz Skin_1dpi_Clean_Data2.fq.gz,fastq fastq,4758945020.0,17104843.0,Skin 1dpi Clean Data1.fq.gz,0:139.12 1:139.11,A:1261511064;C:1113177324;G:1128285977;T:1255959998;N:10657,139,139,,,1261511064,1113177324,1128285977,1255959998,10657,SRX26165991,SRS22710772,SRA1977051,Northwest A&F University|College of Animal Science and Technology,Northwest A&F University,,,,,,,,,,,,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2024-09-22,Adult,Adult,Skin,Surface Structure 38116,SRR1551799,SRX681419,SRS685080,SRP045504,PRJNA258223,Danio rerio strain:TL Transcriptome or Gene expression,PRJNA258223,Other,Transcriptome profiling of keratocytes derived from 2dpf and 4dpf embryos,,,,keratocytes from 4dpf embryos,keratocytes from 4dpf embryos,,breed:TL|strain:TL|age:4dpf|biomaterial provider:Julie Theriot Stanford University|sex:not collected|tissue:keratocytes skin|cell type:keratocyte|dev stage:4dpf|BioSampleModel:Model organism or animal,,,,,,,,,transcriptome from 4dpf keratocytes replicate 3,4dpf 3,4dpf 3,RNA was extracted from approximately 1 x 105 keratocytes per sample using Trizol Invitrogen. Three biological replicates were collected for each developmental stage. Ribosomal RNA was depleted using the Ribo Zero magnetic kit Epicentre. The remaining mRNA was then fragmented with 8 minutes incubation in 50mM sodium carbonate/bicarbonate 1mM EDTA pH 9.2 at 95 degrees. To prepare cDNA first strand synthesis was performed with Superscript III Invitrogen using random hexamer priming and second strand synthesis was performed with DNA Polymerase I NEB. Illumina libraries were prepared from the cDNA in an automated fashion using the Illumina TruSeq sample prep kit with TruSeq adapters on a SPRIworks System I Beckman Coulter. Sequencing reactions were performed on an Illumina Genome Analyzer IIX according to manufacturer’s instructions to generate 40nt single ended reads.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina Genome Analyzer IIx,400Application ReadForward1,SRP045504,,,lane4_4dpf707.fastq,fastq,1001179200.0,25029480.0,4dpf 3,0:40,A:253770714;C:242097985;G:244642013;T:260557997;N:110491,40,,,,253770714,242097985,244642013,260557997,110491,SRX681419,SRS685080,SRA179326,Stanford University|Julie Theriot,Stanford University,1,0.90546,,0.2101,,0.75185,,0.49242,,40,,B,,usable mapping rate,illumina,early_illumina,unknown,poly_a,trueseq,bulk,unknown,unknown,,United States,2015-04-07,Larval,Larval,Skin,Surface Structure 38117,SRR1551798,SRX681418,SRS685080,SRP045504,PRJNA258223,Danio rerio strain:TL Transcriptome or Gene expression,PRJNA258223,Other,Transcriptome profiling of keratocytes derived from 2dpf and 4dpf embryos,,,,keratocytes from 4dpf embryos,keratocytes from 4dpf embryos,,breed:TL|strain:TL|age:4dpf|biomaterial provider:Julie Theriot Stanford University|sex:not collected|tissue:keratocytes skin|cell type:keratocyte|dev stage:4dpf|BioSampleModel:Model organism or animal,,,,,,,,,Transcriptome from 4dpf keratocytes replicate 2,4dpf 2,4dpf 2,RNA was extracted from approximately 1 x 105 keratocytes per sample using Trizol Invitrogen. Three biological replicates were collected for each developmental stage. Ribosomal RNA was depleted using the Ribo Zero magnetic kit Epicentre. The remaining mRNA was then fragmented with 8 minutes incubation in 50mM sodium carbonate/bicarbonate 1mM EDTA pH 9.2 at 95 degrees. To prepare cDNA first strand synthesis was performed with Superscript III Invitrogen using random hexamer priming and second strand synthesis was performed with DNA Polymerase I NEB. Illumina libraries were prepared from the cDNA in an automated fashion using the Illumina TruSeq sample prep kit with TruSeq adapters on a SPRIworks System I Beckman Coulter. Sequencing reactions were performed on an Illumina Genome Analyzer IIX according to manufacturer’s instructions to generate 40nt single ended reads.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina Genome Analyzer IIx,400Application ReadForward1,SRP045504,,,lane7_4col.fastq,fastq,1700157430.0,44740985.0,4dpf 2,0:38,A:394789834;C:418821057;G:504852317;T:369111176;N:12583046,38,,,,394789834,418821057,504852317,369111176,12583046,SRX681418,SRS685080,SRA179326,Stanford University|Julie Theriot,Stanford University,1,0.68441,,0.12529,,0.8338,,0.45494,,38,,B,,usable mapping rate,illumina,early_illumina,unknown,poly_a,trueseq,bulk,unknown,unknown,,United States,2014-08-14,Larval,Larval,Skin,Surface Structure 38118,SRR1551797,SRX681417,SRS685080,SRP045504,PRJNA258223,Danio rerio strain:TL Transcriptome or Gene expression,PRJNA258223,Other,Transcriptome profiling of keratocytes derived from 2dpf and 4dpf embryos,,,,keratocytes from 4dpf embryos,keratocytes from 4dpf embryos,,breed:TL|strain:TL|age:4dpf|biomaterial provider:Julie Theriot Stanford University|sex:not collected|tissue:keratocytes skin|cell type:keratocyte|dev stage:4dpf|BioSampleModel:Model organism or animal,,,,,,,,,4dpf keratocyte transcriptome replicate 1,4dpf 1,4dpf 1,RNA was extracted from approximately 1 x 105 keratocytes per sample using Trizol Invitrogen. Three biological replicates were collected for each developmental stage. Ribosomal RNA was depleted using the Ribo Zero magnetic kit Epicentre. The remaining mRNA was then fragmented with 8 minutes incubation in 50mM sodium carbonate/bicarbonate 1mM EDTA pH 9.2 at 95 degrees. To prepare cDNA first strand synthesis was performed with Superscript III Invitrogen using random hexamer priming and second strand synthesis was performed with DNA Polymerase I NEB. Illumina libraries were prepared from the cDNA in an automated fashion using the Illumina TruSeq sample prep kit with TruSeq adapters on a SPRIworks System I Beckman Coulter. Sequencing reactions were performed on an Illumina Genome Analyzer IIX according to manufacturer’s instructions to generate 40nt single ended reads.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina Genome Analyzer IIx,470Application ReadForward1,SRP045504,,,lane7_1_4dpf.fastq,fastq,762138229.0,16215707.0,4dpf 1,0:47,A:183899711;C:180347476;G:190086042;T:189460942;N:18344058,47,,,,183899711,180347476,190086042,189460942,18344058,SRX681417,SRS685080,SRA179326,Stanford University|Julie Theriot,Stanford University,1,0.85884,,0.2135,,0.80077,,0.50539,,47,,B,,usable mapping rate,illumina,early_illumina,unknown,poly_a,trueseq,bulk,unknown,unknown,,United States,2014-08-15,Larval,Larval,Skin,Surface Structure 38119,SRR1551796,SRX681416,SRS685079,SRP045504,PRJNA258223,Danio rerio strain:TL Transcriptome or Gene expression,PRJNA258223,Other,Transcriptome profiling of keratocytes derived from 2dpf and 4dpf embryos,,,,Transcriptome from 2dpf keratocytes,keratocytes from 2dpf embryos,,breed:TL|strain:TL|age:2dpf|biomaterial provider:Julie Theriot Stanford University|sex:not collected|tissue:keratocytes skin|cell type:keratocyte|dev stage:2dpf|BioSampleModel:Model organism or animal,,,,,,,,,Transcriptome from 2dpf keratocytes replicate 3,2dpf 3,2dpf 3,RNA was extracted from approximately 1 x 105 keratocytes per sample using Trizol Invitrogen. Three biological replicates were collected for each developmental stage. Ribosomal RNA was depleted using the Ribo Zero magnetic kit Epicentre. The remaining mRNA was then fragmented with 8 minutes incubation in 50mM sodium carbonate/bicarbonate 1mM EDTA pH 9.2 at 95 degrees. To prepare cDNA first strand synthesis was performed with Superscript III Invitrogen using random hexamer priming and second strand synthesis was performed with DNA Polymerase I NEB. Illumina libraries were prepared from the cDNA in an automated fashion using the Illumina TruSeq sample prep kit with TruSeq adapters on a SPRIworks System I Beckman Coulter. Sequencing reactions were performed on an Illumina Genome Analyzer IIX according to manufacturer’s instructions to generate 40nt single ended reads.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina Genome Analyzer IIx,400Application ReadForward1,SRP045504,,,lane3_2dpf629.fastq,fastq,551787520.0,13794688.0,2dpf 3,0:40,A:138660463;C:132605577;G:134640312;T:145852714;N:28454,40,,,,138660463,132605577,134640312,145852714,28454,SRX681416,SRS685079,SRA179323,Stanford University|Julie Theriot,Stanford University,1,0.91375,,0.21598,,0.75317,,0.47881,,40,,B,,usable mapping rate,illumina,early_illumina,unknown,poly_a,trueseq,bulk,unknown,unknown,,United States,2014-08-14,Hatching,Embryo,Skin,Surface Structure 38120,SRR1551795,SRX681415,SRS685079,SRP045504,PRJNA258223,Danio rerio strain:TL Transcriptome or Gene expression,PRJNA258223,Other,Transcriptome profiling of keratocytes derived from 2dpf and 4dpf embryos,,,,Transcriptome from 2dpf keratocytes,keratocytes from 2dpf embryos,,breed:TL|strain:TL|age:2dpf|biomaterial provider:Julie Theriot Stanford University|sex:not collected|tissue:keratocytes skin|cell type:keratocyte|dev stage:2dpf|BioSampleModel:Model organism or animal,,,,,,,,,Transcriptome from 2dpf keratocytes,2dpf 2,2dpf 2,RNA was extracted from approximately 1 x 105 keratocytes per sample using Trizol Invitrogen. Three biological replicates were collected for each developmental stage. Ribosomal RNA was depleted using the Ribo Zero magnetic kit Epicentre. The remaining mRNA was then fragmented with 8 minutes incubation in 50mM sodium carbonate/bicarbonate 1mM EDTA pH 9.2 at 95 degrees. To prepare cDNA first strand synthesis was performed with Superscript III Invitrogen using random hexamer priming and second strand synthesis was performed with DNA Polymerase I NEB. Illumina libraries were prepared from the cDNA in an automated fashion using the Illumina TruSeq sample prep kit with TruSeq adapters on a SPRIworks System I Beckman Coulter. Sequencing reactions were performed on an Illumina Genome Analyzer IIX according to manufacturer’s instructions to generate 40nt single ended reads.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina Genome Analyzer IIx,400Application ReadForward1,SRP045504,,,lane1_2dpf.fastq,fastq,796874112.0,22135392.0,2dpf 2,0:36,A:209956517;C:184659684;G:185142987;T:216055902;N:1059022,36,,,,209956517,184659684,185142987,216055902,1059022,SRX681415,SRS685079,SRA179323,Stanford University|Julie Theriot,Stanford University,1,0.89178,,0.17837,,0.7609,,0.49774,,36,,B,,usable mapping rate,illumina,early_illumina,unknown,poly_a,trueseq,bulk,unknown,unknown,,United States,2015-04-07,Hatching,Embryo,Skin,Surface Structure 38121,SRR1551782,SRX681402,SRS685079,SRP045504,PRJNA258223,Danio rerio strain:TL Transcriptome or Gene expression,PRJNA258223,Other,Transcriptome profiling of keratocytes derived from 2dpf and 4dpf embryos,,,,Transcriptome from 2dpf keratocytes,keratocytes from 2dpf embryos,,breed:TL|strain:TL|age:2dpf|biomaterial provider:Julie Theriot Stanford University|sex:not collected|tissue:keratocytes skin|cell type:keratocyte|dev stage:2dpf|BioSampleModel:Model organism or animal,,,,,,,,,2dpf keratocytes replicate 1,2dpf 1,2dpf 1,RNA was extracted from approximately 1 x 105 keratocytes per sample using Trizol Invitrogen. Three biological replicates were collected for each developmental stage. Ribosomal RNA was depleted using the Ribo Zero magnetic kit Epicentre. The remaining mRNA was then fragmented with 8 minutes incubation in 50mM sodium carbonate/bicarbonate 1mM EDTA pH 9.2 at 95 degrees. To prepare cDNA first strand synthesis was performed with Superscript III Invitrogen using random hexamer priming and second strand synthesis was performed with DNA Polymerase I NEB. Illumina libraries were prepared from the cDNA in an automated fashion using the Illumina TruSeq sample prep kit with TruSeq adapters on a SPRIworks System I Beckman Coulter. Sequencing reactions were performed on an Illumina Genome Analyzer IIX according to manufacturer’s instructions to generate 40nt single ended reads.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,SINGLE,ILLUMINA,Illumina Genome Analyzer IIx,400Application ReadForward1,SRP045504,,,lane6_2dpf.fastq,fastq,647944118.0,17051161.0,2dpf 1,0:38,A:145735255;C:167786338;G:186677806;T:141598169;N:6146550,38,,,,145735255,167786338,186677806,141598169,6146550,SRX681402,SRS685079,SRA179323,Stanford University|Julie Theriot,Stanford University,1,0.7695,,0.15816,,0.81491,,0.44972,,38,,B,,usable mapping rate,illumina,early_illumina,unknown,poly_a,trueseq,bulk,unknown,unknown,,United States,2014-08-14,Hatching,Embryo,Skin,Surface Structure 70110,SRR19561930,SRX15614020,SRS13314715,SRP378802,PRJNA846110,Danio rerio Raw sequence reads,PRJNA846110,Other,Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio,,,,Dr13 3,Dr13 3,,strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:13 replicate 3|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio: adult female 45 13 3 skin,45 13 3 skin,45 13 3 skin,All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2 Vazyme Biotech Co. Ltd NR612 02 and subjected to 150bp paired end sequencing on a Novaseq 6052 illumina platform.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP378802,,,45-13-3-skin-RNA_R1.fq.gz 45-13-3-skin-RNA_R2.fq.gz,fastq fastq,8803960200.0,29346534.0,45 13 3 skin RNA R1.fq.gz,0:150 1:150,A:2331850157;C:2044379248;G:2068899530;T:2358671653;N:159612,150,150,,,2331850157,2044379248,2068899530,2358671653,159612,SRX15614020,SRS13314715,SRA1432943,shanghai ocean university|College of Fisheries and Life Science,shanghai ocean university,2,0.94093,0.93983,0.07299,0.07323,0.70956,0.7175,0.49542,0.49282,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-06-07,Adult,Adult,Skin,Surface Structure 70117,SRR19561937,SRX15614013,SRS13314714,SRP378802,PRJNA846110,Danio rerio Raw sequence reads,PRJNA846110,Other,Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio,,,,Dr13 2,Dr13 2,,strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:13 replicate 2|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio: adult female 40 13 2 skin,40 13 2 skin,40 13 2 skin,All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2 Vazyme Biotech Co. Ltd NR612 02 and subjected to 150bp paired end sequencing on a Novaseq 6046 illumina platform.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP378802,,,40-13-2-skin-RNA_R1.fq.gz 40-13-2-skin-RNA_R2.fq.gz,fastq fastq,7384104300.0,24613681.0,40 13 2 skin RNA R1.fq.gz,0:150 1:150,A:1946285906;C:1723958270;G:1744031915;T:1969696634;N:131575,150,150,,,1946285906,1723958270,1744031915,1969696634,131575,SRX15614013,SRS13314714,SRA1432943,shanghai ocean university|College of Fisheries and Life Science,shanghai ocean university,2,0.93711,0.93654,0.07583,0.07619,0.70329,0.71106,0.49506,0.48489,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-06-07,Adult,Adult,Skin,Surface Structure 70123,SRR19561943,SRX15614007,SRS13314713,SRP378802,PRJNA846110,Danio rerio Raw sequence reads,PRJNA846110,Other,Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio,,,,Dr13 1,Dr13 1,,strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:13 replicate 1|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio: adult female 35 13 1 skin,35 13 1 skin,35 13 1 skin,All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2 Vazyme Biotech Co. Ltd NR612 02 and subjected to 150bp paired end sequencing on a Novaseq 6040 illumina platform.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP378802,,,35-13-1-skin-RNA_R1.fq.gz 35-13-1-skin-RNA_R2.fq.gz,fastq fastq,7048170000.0,23493900.0,35 13 1 skin RNA R1.fq.gz,0:150 1:150,A:1853436919;C:1646809377;G:1671470350;T:1876315196;N:138158,150,150,,,1853436919,1646809377,1671470350,1876315196,138158,SRX15614007,SRS13314713,SRA1432943,shanghai ocean university|College of Fisheries and Life Science,shanghai ocean university,2,0.94089,0.9437,0.07696,0.07752,0.71269,0.71672,0.48203,0.48846,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-06-07,Adult,Adult,Skin,Surface Structure 70124,SRR19561944,SRX15614006,SRS13314707,SRP378802,PRJNA846110,Danio rerio Raw sequence reads,PRJNA846110,Other,Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio,,,,Dr27 1,Dr27 1,,strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:27 replicate 1|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio: adult female 5 27 1 skin,5 27 1 skin,5 27 1 skin,All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2 Vazyme Biotech Co. Ltd NR612 02 and subjected to 150bp paired end sequencing on a Novaseq 6004 illumina platform.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP378802,,,5-27-1-skin-RNA_R1.fq.gz 5-27-1-skin-RNA_R2.fq.gz,fastq fastq,7896213300.0,26320711.0,5 27 1 skin RNA R1.fq.gz,0:150 1:150,A:2053107057;C:1861415213;G:1895292332;T:2086241112;N:157586,150,150,,,2053107057,1861415213,1895292332,2086241112,157586,SRX15614006,SRS13314707,SRA1432943,shanghai ocean university|College of Fisheries and Life Science,shanghai ocean university,2,0.94616,0.94573,0.06222,0.062,0.70711,0.71299,0.46446,0.4685,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-06-07,Adult,Adult,Skin,Surface Structure 70130,SRR19561950,SRX15614000,SRS13314712,SRP378802,PRJNA846110,Danio rerio Raw sequence reads,PRJNA846110,Other,Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio,,,,Dr18 3,Dr18 3,,strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:18 replicate 3|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio: adult female 30 18 3 skin,30 18 3 skin,30 18 3 skin,All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2 Vazyme Biotech Co. Ltd NR612 02 and subjected to 150bp paired end sequencing on a Novaseq 6034 illumina platform.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP378802,,,30-18-3-skin-RNA_R1.fq.gz 30-18-3-skin-RNA_R2.fq.gz,fastq fastq,8332988400.0,27776628.0,30 18 3 skin RNA R1.fq.gz,0:150 1:150,A:2171684017;C:1969633232;G:1983804591;T:2207704640;N:161920,150,150,,,2171684017,1969633232,1983804591,2207704640,161920,SRX15614000,SRS13314712,SRA1432943,shanghai ocean university|College of Fisheries and Life Science,shanghai ocean university,2,0.94853,0.94998,0.06705,0.06721,0.70828,0.71338,0.50912,0.51354,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-06-07,Adult,Adult,Skin,Surface Structure 70137,SRR19561957,SRX15613993,SRS13314711,SRP378802,PRJNA846110,Danio rerio Raw sequence reads,PRJNA846110,Other,Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio,,,,Dr18 2,Dr18 2,,strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:18 replicate 2|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio: adult female 25 18 2 skin,25 18 2 skin,25 18 2 skin,All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2 Vazyme Biotech Co. Ltd NR612 02 and subjected to 150bp paired end sequencing on a Novaseq 6028 illumina platform.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP378802,,,25-18-2-skin-RNA_R1.fq.gz 25-18-2-skin-RNA_R2.fq.gz,fastq fastq,7904881200.0,26349604.0,25 18 2 skin RNA R1.fq.gz,0:150 1:150,A:2072962586;C:1858401810;G:1869931908;T:2103432362;N:152534,150,150,,,2072962586,1858401810,1869931908,2103432362,152534,SRX15613993,SRS13314711,SRA1432943,shanghai ocean university|College of Fisheries and Life Science,shanghai ocean university,2,0.94613,0.94717,0.07133,0.0724,0.71035,0.71539,0.49748,0.4888,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-06-07,Adult,Adult,Skin,Surface Structure 70143,SRR19561963,SRX15613987,SRS13314710,SRP378802,PRJNA846110,Danio rerio Raw sequence reads,PRJNA846110,Other,Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio,,,,Dr18 1,Dr18 1,,strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:18 replicate 1|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio: adult female 20 18 1 skin,20 18 1 skin,20 18 1 skin,All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2 Vazyme Biotech Co. Ltd NR612 02 and subjected to 150bp paired end sequencing on a Novaseq 6022 illumina platform.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP378802,,,20-18-1-skin-RNA_R1.fq.gz 20-18-1-skin-RNA_R2.fq.gz,fastq fastq,6302723700.0,21009079.0,20 18 1 skin RNA R1.fq.gz,0:150 1:150,A:1658019159;C:1467864572;G:1495349428;T:1681368226;N:122315,150,150,,,1658019159,1467864572,1495349428,1681368226,122315,SRX15613987,SRS13314710,SRA1432943,shanghai ocean university|College of Fisheries and Life Science,shanghai ocean university,2,0.94106,0.94262,0.07248,0.07365,0.69727,0.70128,0.49998,0.49553,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-06-07,Adult,Adult,Skin,Surface Structure 70150,SRR19561970,SRX15613980,SRS13314709,SRP378802,PRJNA846110,Danio rerio Raw sequence reads,PRJNA846110,Other,Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio,,,,Dr27 3,Dr27 3,,strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:27 replicate 3|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio: adult female 15 27 3 skin,15 27 3 skin,15 27 3 skin,All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2 Vazyme Biotech Co. Ltd NR612 02 and subjected to 150bp paired end sequencing on a Novaseq 6016 illumina platform.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP378802,,,15-27-3-skin-RNA_R1.fq.gz 15-27-3-skin-RNA_R2.fq.gz,fastq fastq,7913211900.0,26377373.0,15 27 3 skin RNA R1.fq.gz,0:150 1:150,A:2076008636;C:1844679397;G:1885171351;T:2107194429;N:158087,150,150,,,2076008636,1844679397,1885171351,2107194429,158087,SRX15613980,SRS13314709,SRA1432943,shanghai ocean university|College of Fisheries and Life Science,shanghai ocean university,2,0.94254,0.94213,0.06887,0.06809,0.71192,0.71701,0.47169,0.47147,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-06-07,Adult,Adult,Skin,Surface Structure 70156,SRR19561976,SRX15613974,SRS13314708,SRP378802,PRJNA846110,Danio rerio Raw sequence reads,PRJNA846110,Other,Temperature dependence of RNA editing in six tissues of the zebrafish Danio rerio,,,,Dr27 2,Dr27 2,,strain:not applicable|isolate:not applicable|breed:not applicable|cultivar:not applicable|ecotype:not applicable|age:not applicable|dev stage:adult|sex:female|tissue:multi tissue|aliquot:27 replicate 2|BioSampleModel:Model organism or animal,,,,,,,,,RNA Seq of Danio rerio: adult female 10 27 2 skin,10 27 2 skin,10 27 2 skin,All strand specific RNA seq libraries were constructed using VAHTS Stranded mRNA seq library Prep kit for Illumina v2 Vazyme Biotech Co. Ltd NR612 02 and subjected to 150bp paired end sequencing on a Novaseq 6010 illumina platform.,,,RNA-Seq,TRANSCRIPTOMIC,PolyA,PAIRED,ILLUMINA,Illumina NovaSeq 6000,,SRP378802,,,10-27-2-skin-RNA_R1.fq.gz 10-27-2-skin-RNA_R2.fq.gz,fastq fastq,7498714500.0,24995715.0,10 27 2 skin RNA R1.fq.gz,0:150 1:150,A:1911552417;C:1806172582;G:1833987572;T:1946852984;N:148945,150,150,,,1911552417,1806172582,1833987572,1946852984,148945,SRX15613974,SRS13314708,SRA1432943,shanghai ocean university|College of Fisheries and Life Science,shanghai ocean university,2,0.95554,0.95451,0.05031,0.04915,0.72754,0.73385,0.4814,0.46469,150,150,B,B,biological fallback assumption,illumina,novaseq_era,unknown,poly_a,unknown,bulk,unknown,unknown,,China,2022-06-07,Adult,Adult,Skin,Surface Structure