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run_metadata

24 rows where experiment.library_selection = "PolyA", experiment.library_source = "TRANSCRIPTOMIC" and experiment.platform = "DNBSEQ"

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tissue_curation 3

devstage_curation_coarse 3

devstage_curation 3

experiment.library_strategy 2

technology 1

experiment.platform 1

  • DNBSEQ · 24 ✖

experiment.library_source 1

  • TRANSCRIPTOMIC · 24 ✖

experiment.library_selection 1

  • PolyA · 24 ✖

experiment.library_layout 1

Link rowid ▼ run.accession experiment.accession sample.accession study.accession bioproject study.title study.alias study.type study.abstract study.attributes study.PMIDs sample.description sample.title sample.alias sample.centername sample.attributes GEOsample.title GEOsample.dataprocessing GEOsample.source GEOsample.treatmentprotocol GEOsample.extractprotocol GEOsample.growthprotocol GEOsample.characteristics GEOsample.accession experiment.title experiment.alias experiment.library_name experiment.design_description experiment.library_construction_protocol experiment.attributes experiment.library_strategy experiment.library_source experiment.library_selection experiment.library_layout experiment.platform experiment.instrument_model experiment.spot_descriptor experiment.study_ref run.title run.attributes run.filename run.semantic_name run.total_bases run.total_spots run.alias run.read_lengths run.base_counts run.r1_length run.r2_length run.r3_length run.r4_length run.Acount run.Ccount run.Gcount run.Tcount run.Ncount run.experiment run.pool_member submission.accession submission.srasource submission.bioprojectsource seqdetective.n_mates seqdetective.mapping_rate.mate1 seqdetective.mapping_rate.mate2 seqdetective.nofeature_rate.mate1 seqdetective.nofeature_rate.mate2 seqdetective.sparsity.mate1 seqdetective.sparsity.mate2 seqdetective.pos_strand_rate.mate1 seqdetective.pos_strand_rate.mate2 seqdetective.readlen.mate1 seqdetective.readlen.mate2 seqdetective.judgement.mate1 seqdetective.judgement.mate2 seqdetective.judgement.reason platform_family instrument_generation read_bias selection_class prep_kit sc_or_bulk tech_class technology tech_variant submission.bioprojectsource.country earliest_date devstage_curation devstage_curation_coarse tissue_curation tissue_curation_coarse
31980 31980 SRR28892728 SRX24451189 SRS21204958 SRP505641 PRJNA1107713 Tea polyphenols induce hepatotoxicity by interfering with adult zebrafish lipid metabolism and gut microbiota through the gut liver axis PRJNA1107713 Other High dose tea polyphenols may promote fatty acid absorption by hepatocytes by up regulating FABP CD36 and SRB1 genes inhibiting fatty acid efflux by down regulating ABCA1 genes and inhibiting fatty acid beta oxidation by down regulating CPT1 and ACAA2 genes resulting in fat accumulation in hepatocytes upregulation of inflammatory pathways and increased expression of pro inflammatory factors TNF a and IL1 b.         TP3   strain:not applicable|isolate:not applicable|breed:not collected|cultivar:not applicable|ecotype:AB ecotype|age:5 month|collection date:2022 11 24|geo loc name:China|sex:male|tissue:liver|replicate:replicate=biological replicate 6|BioSampleModel:Model organism or animal                 Adult zebrafish liver TP3 TP3 mRNAseq of zebrafish liver replication 3 of TP     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED DNBSEQ DNBSEQ-T7   SRP505641     TP3_1.fq.gz TP3_2.fq.gz fastq fastq 6657069900.0 22190233.0 TP3 1.fq.gz 0:150 1:150 A:1808410149;C:1512668682;G:1536153888;T:1799837181;N:0 150 150     1808410149 1512668682 1536153888 1799837181 0 SRX24451189 SRS21204958 SRA1858747 Beibu Gulf University|college of Food Engineering Beibu Gulf University                       B B biological fallback assumption bgi bgi unknown poly_a unknown bulk unknown unknown   China 2024-05-04 Adult Adult Liver Liver and Biliary System
31981 31981 SRR28892729 SRX24451188 SRS21204959 SRP505641 PRJNA1107713 Tea polyphenols induce hepatotoxicity by interfering with adult zebrafish lipid metabolism and gut microbiota through the gut liver axis PRJNA1107713 Other High dose tea polyphenols may promote fatty acid absorption by hepatocytes by up regulating FABP CD36 and SRB1 genes inhibiting fatty acid efflux by down regulating ABCA1 genes and inhibiting fatty acid beta oxidation by down regulating CPT1 and ACAA2 genes resulting in fat accumulation in hepatocytes upregulation of inflammatory pathways and increased expression of pro inflammatory factors TNF a and IL1 b.         TP2   strain:not applicable|isolate:not applicable|breed:not collected|cultivar:not applicable|ecotype:AB ecotype|age:5 month|collection date:2022 11 24|geo loc name:China|sex:male|tissue:liver|replicate:replicate=biological replicate 5|BioSampleModel:Model organism or animal                 Adult zebrafish liver TP2 TP2 mRNAseq of zebrafish liver replication 2 of TP     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED DNBSEQ DNBSEQ-T7   SRP505641     TP2_1.fq.gz TP2_2.fq.gz fastq fastq 6617368500.0 22057895.0 TP2 1.fq.gz 0:150 1:150 A:1799646726;C:1503407966;G:1523443584;T:1790870224;N:0 150 150     1799646726 1503407966 1523443584 1790870224 0 SRX24451188 SRS21204959 SRA1858747 Beibu Gulf University|college of Food Engineering Beibu Gulf University                       B B biological fallback assumption bgi bgi unknown poly_a unknown bulk unknown unknown   China 2024-05-04 Adult Adult Liver Liver and Biliary System
31982 31982 SRR28892730 SRX24451187 SRS21204956 SRP505641 PRJNA1107713 Tea polyphenols induce hepatotoxicity by interfering with adult zebrafish lipid metabolism and gut microbiota through the gut liver axis PRJNA1107713 Other High dose tea polyphenols may promote fatty acid absorption by hepatocytes by up regulating FABP CD36 and SRB1 genes inhibiting fatty acid efflux by down regulating ABCA1 genes and inhibiting fatty acid beta oxidation by down regulating CPT1 and ACAA2 genes resulting in fat accumulation in hepatocytes upregulation of inflammatory pathways and increased expression of pro inflammatory factors TNF a and IL1 b.         TP1   strain:not applicable|isolate:not applicable|breed:not collected|cultivar:not applicable|ecotype:AB ecotype|age:5 month|collection date:2022 11 24|geo loc name:China|sex:male|tissue:liver|replicate:replicate=biological replicate 4|BioSampleModel:Model organism or animal                 Adult zebrafish liver TP1 TP1 mRNAseq of zebrafish liver replication 1 of TP     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED DNBSEQ DNBSEQ-T7   SRP505641     TP1_1.fq.gz TP1_2.fq.gz fastq fastq 6432586800.0 21441956.0 TP1 1.fq.gz 0:150 1:150 A:1743341515;C:1465440262;G:1488109144;T:1735695879;N:0 150 150     1743341515 1465440262 1488109144 1735695879 0 SRX24451187 SRS21204956 SRA1858747 Beibu Gulf University|college of Food Engineering Beibu Gulf University                       B B biological fallback assumption bgi bgi unknown poly_a unknown bulk unknown unknown   China 2024-05-04 Adult Adult Liver Liver and Biliary System
31983 31983 SRR28892731 SRX24451186 SRS21204957 SRP505641 PRJNA1107713 Tea polyphenols induce hepatotoxicity by interfering with adult zebrafish lipid metabolism and gut microbiota through the gut liver axis PRJNA1107713 Other High dose tea polyphenols may promote fatty acid absorption by hepatocytes by up regulating FABP CD36 and SRB1 genes inhibiting fatty acid efflux by down regulating ABCA1 genes and inhibiting fatty acid beta oxidation by down regulating CPT1 and ACAA2 genes resulting in fat accumulation in hepatocytes upregulation of inflammatory pathways and increased expression of pro inflammatory factors TNF a and IL1 b.         CONT3   strain:not applicable|isolate:not applicable|breed:not collected|cultivar:not applicable|ecotype:AB ecotype|age:5 month|collection date:2022 11 24|geo loc name:China|sex:male|tissue:liver|replicate:replicate=biological replicate 3|BioSampleModel:Model organism or animal                 Adult zebrafish liver CON3 CON3 mRNAseq of zebrafish liver replication 3 of CONT     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED DNBSEQ DNBSEQ-T7   SRP505641     CONT3_1.fq.gz CONT3_2.fq.gz fastq fastq 6595768200.0 21985894.0 CONT3 1.fq.gz 0:150 1:150 A:1762107185;C:1525175684;G:1547321856;T:1761163475;N:0 150 150     1762107185 1525175684 1547321856 1761163475 0 SRX24451186 SRS21204957 SRA1858747 Beibu Gulf University|college of Food Engineering Beibu Gulf University                       B B biological fallback assumption bgi bgi unknown poly_a unknown bulk unknown unknown   China 2024-05-04 Adult Adult Liver Liver and Biliary System
31984 31984 SRR28892732 SRX24451185 SRS21204954 SRP505641 PRJNA1107713 Tea polyphenols induce hepatotoxicity by interfering with adult zebrafish lipid metabolism and gut microbiota through the gut liver axis PRJNA1107713 Other High dose tea polyphenols may promote fatty acid absorption by hepatocytes by up regulating FABP CD36 and SRB1 genes inhibiting fatty acid efflux by down regulating ABCA1 genes and inhibiting fatty acid beta oxidation by down regulating CPT1 and ACAA2 genes resulting in fat accumulation in hepatocytes upregulation of inflammatory pathways and increased expression of pro inflammatory factors TNF a and IL1 b.         CONT2   strain:not applicable|isolate:not applicable|breed:not collected|cultivar:not applicable|ecotype:AB ecotype|age:5 month|collection date:2022 11 24|geo loc name:China|sex:male|tissue:liver|replicate:replicate=biological replicate 2|BioSampleModel:Model organism or animal                 Adult zebrafish liver CON2 CON2 mRNAseq of zebrafish liver replication 2 of CONT     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED DNBSEQ DNBSEQ-T7   SRP505641     CONT2_1.fq.gz CONT2_2.fq.gz fastq fastq 6175346400.0 20584488.0 CONT2 1.fq.gz 0:150 1:150 A:1656546719;C:1421990443;G:1442409824;T:1654399414;N:0 150 150     1656546719 1421990443 1442409824 1654399414 0 SRX24451185 SRS21204954 SRA1858747 Beibu Gulf University|college of Food Engineering Beibu Gulf University                       B B biological fallback assumption bgi bgi unknown poly_a unknown bulk unknown unknown   China 2024-05-04 Adult Adult Liver Liver and Biliary System
31985 31985 SRR28892733 SRX24451184 SRS21204955 SRP505641 PRJNA1107713 Tea polyphenols induce hepatotoxicity by interfering with adult zebrafish lipid metabolism and gut microbiota through the gut liver axis PRJNA1107713 Other High dose tea polyphenols may promote fatty acid absorption by hepatocytes by up regulating FABP CD36 and SRB1 genes inhibiting fatty acid efflux by down regulating ABCA1 genes and inhibiting fatty acid beta oxidation by down regulating CPT1 and ACAA2 genes resulting in fat accumulation in hepatocytes upregulation of inflammatory pathways and increased expression of pro inflammatory factors TNF a and IL1 b.         CONT1   strain:not applicable|isolate:not applicable|breed:not collected|cultivar:not applicable|ecotype:AB ecotype|age:5 month|collection date:2022 11 24|geo loc name:China|sex:male|tissue:liver|replicate:replicate=biological replicate 1|BioSampleModel:Model organism or animal                 Adult zebrafish liver CON1 CON1 mRNAseq of zebrafish liver replication 1 of CONT     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED DNBSEQ DNBSEQ-T7   SRP505641     CONT1_1.fq.gz CONT1_2.fq.gz fastq fastq 6342828300.0 21142761.0 CONT1 1.fq.gz 0:150 1:150 A:1698306803;C:1464261565;G:1482929449;T:1697330483;N:0 150 150     1698306803 1464261565 1482929449 1697330483 0 SRX24451184 SRS21204955 SRA1858747 Beibu Gulf University|college of Food Engineering Beibu Gulf University                       B B biological fallback assumption bgi bgi unknown poly_a unknown bulk unknown unknown   China 2024-05-04 Adult Adult Liver Liver and Biliary System
36214 36214 SRR33581822 SRX28811683 SRS25048556 SRP585544 PRJNA1263423 Ginsenoside Rg1 modulates key pathways in zebrafish with glucocorticoid induced osteoporosis PRJNA1263423 Other           Rg1 L3   strain:Not collected|isolate:Rg1 L3|cultivar:Not collected|ecotype:Not collected|age:8 dpf stage:Larvae|collection date:2024 06 03|geo loc name:Not collected|sex:Not collected|tissue:Larvae|tmp:9|BioSampleModel:Model organism or animal                 RNA seq of Zebrafish: Treatment Rg1 L3 Rg1 L3 Treatment     WGS TRANSCRIPTOMIC PolyA PAIRED DNBSEQ DNBSEQ-G400   SRP585544     D4_1.fq.gz D4_2.fq.gz fastq fastq 6696495000.0 22321650.0 D4 1.fq.gz 0:150 1:150 A:1846856660;C:1513002602;G:1504866522;T:1831769216;N:0 150 150     1846856660 1513002602 1504866522 1831769216 0 SRX28811683 SRS25048556 SRA2130283 Hubei University of Medicine|Graduate school Hubei University of Medicine                       B B biological fallback assumption bgi bgi unknown poly_a unknown bulk unknown unknown   China 2025-05-15 Larval Larval Undetermined Undetermined
36215 36215 SRR33581823 SRX28811682 SRS25048555 SRP585544 PRJNA1263423 Ginsenoside Rg1 modulates key pathways in zebrafish with glucocorticoid induced osteoporosis PRJNA1263423 Other           Rg1 L7   strain:Not collected|isolate:Rg1 L7|cultivar:Not collected|ecotype:Not collected|age:8 dpf stage:Larvae|collection date:2024 06 03|geo loc name:Not collected|sex:Not collected|tissue:Larvae|tmp:8|BioSampleModel:Model organism or animal                 RNA seq of Zebrafish: Treatment Rg1 L7 Rg1 L7 Treatment     WGS TRANSCRIPTOMIC PolyA PAIRED DNBSEQ DNBSEQ-G400   SRP585544     D2_1.fq.gz D2_2.fq.gz fastq fastq 6666041700.0 22220139.0 D2 1.fq.gz 0:150 1:150 A:1845276816;C:1500512488;G:1492917547;T:1827334849;N:0 150 150     1845276816 1500512488 1492917547 1827334849 0 SRX28811682 SRS25048555 SRA2130283 Hubei University of Medicine|Graduate school Hubei University of Medicine                       B B biological fallback assumption bgi bgi unknown poly_a unknown bulk unknown unknown   China 2025-05-15 Larval Larval Undetermined Undetermined
36216 36216 SRR33581824 SRX28811681 SRS25048554 SRP585544 PRJNA1263423 Ginsenoside Rg1 modulates key pathways in zebrafish with glucocorticoid induced osteoporosis PRJNA1263423 Other           Rg1 L5   strain:Not collected|isolate:Rg1 L5|cultivar:Not collected|ecotype:Not collected|age:8 dpf stage:Larvae|collection date:2024 06 03|geo loc name:Not collected|sex:Not collected|tissue:Larvae|tmp:7|BioSampleModel:Model organism or animal                 RNA seq of Zebrafish: Treatment Rg1 L5 Rg1 L5 Treatment     WGS TRANSCRIPTOMIC PolyA PAIRED DNBSEQ DNBSEQ-G400   SRP585544     D1_1.fq.gz D1_2.fq.gz fastq fastq 6698296200.0 22327654.0 D1 1.fq.gz 0:150 1:150 A:1843962508;C:1518208646;G:1509450148;T:1826674898;N:0 150 150     1843962508 1518208646 1509450148 1826674898 0 SRX28811681 SRS25048554 SRA2130283 Hubei University of Medicine|Graduate school Hubei University of Medicine                       B B biological fallback assumption bgi bgi unknown poly_a unknown bulk unknown unknown   China 2025-05-15 Larval Larval Undetermined Undetermined
36217 36217 SRR33581825 SRX28811680 SRS25048553 SRP585544 PRJNA1263423 Ginsenoside Rg1 modulates key pathways in zebrafish with glucocorticoid induced osteoporosis PRJNA1263423 Other           PN L7   strain:Not collected|isolate:PN L7|cultivar:Not collected|ecotype:Not collected|age:8 dpf stage:Larvae|collection date:2024 06 03|geo loc name:Not collected|sex:Not collected|tissue:Larvae|tmp:6|BioSampleModel:Model organism or animal                 RNA seq of Zebrafish: Model PN L7 PN L7 Model     WGS TRANSCRIPTOMIC PolyA PAIRED DNBSEQ DNBSEQ-G400   SRP585544     B3_1.fq.gz B3_2.fq.gz fastq fastq 6611023200.0 22036744.0 B3 1.fq.gz 0:150 1:150 A:1823488173;C:1492231000;G:1485521400;T:1809782627;N:0 150 150     1823488173 1492231000 1485521400 1809782627 0 SRX28811680 SRS25048553 SRA2130283 Hubei University of Medicine|Graduate school Hubei University of Medicine                       B B biological fallback assumption bgi bgi unknown poly_a unknown bulk unknown unknown   China 2025-05-15 Larval Larval Undetermined Undetermined
36218 36218 SRR33581826 SRX28811679 SRS25048552 SRP585544 PRJNA1263423 Ginsenoside Rg1 modulates key pathways in zebrafish with glucocorticoid induced osteoporosis PRJNA1263423 Other           PN L2   strain:Not collected|isolate:PN L2|cultivar:Not collected|ecotype:Not collected|age:8 dpf stage:Larvae|collection date:2024 06 03|geo loc name:Not collected|sex:Not collected|tissue:Larvae|tmp:5|BioSampleModel:Model organism or animal                 RNA seq of Zebrafish: Model PN L2 PN L2 Model     WGS TRANSCRIPTOMIC PolyA PAIRED DNBSEQ DNBSEQ-G400   SRP585544     B2_1.fq.gz B2_2.fq.gz fastq fastq 6673419600.0 22244732.0 B2 1.fq.gz 0:150 1:150 A:1853555661;C:1496204062;G:1487686506;T:1835973371;N:0 150 150     1853555661 1496204062 1487686506 1835973371 0 SRX28811679 SRS25048552 SRA2130283 Hubei University of Medicine|Graduate school Hubei University of Medicine                       B B biological fallback assumption bgi bgi unknown poly_a unknown bulk unknown unknown   China 2025-05-15 Larval Larval Undetermined Undetermined
36219 36219 SRR33581827 SRX28811678 SRS25048551 SRP585544 PRJNA1263423 Ginsenoside Rg1 modulates key pathways in zebrafish with glucocorticoid induced osteoporosis PRJNA1263423 Other           PN L4   strain:Not collected|isolate:PN L4|cultivar:Not collected|ecotype:Not collected|age:8 dpf stage:Larvae|collection date:2024 06 03|geo loc name:Not collected|sex:Not collected|tissue:Larvae|tmp:4|BioSampleModel:Model organism or animal                 RNA seq of Zebrafish: Model PN L4 PN L4 Model     WGS TRANSCRIPTOMIC PolyA PAIRED DNBSEQ DNBSEQ-G400   SRP585544     B1_1.fq.gz B1_2.fq.gz fastq fastq 6654915300.0 22183051.0 B1 1.fq.gz 0:150 1:150 A:1864666474;C:1477163584;G:1469026869;T:1844058373;N:0 150 150     1864666474 1477163584 1469026869 1844058373 0 SRX28811678 SRS25048551 SRA2130283 Hubei University of Medicine|Graduate school Hubei University of Medicine                       B B biological fallback assumption bgi bgi unknown poly_a unknown bulk unknown unknown   China 2025-05-15 Larval Larval Undetermined Undetermined
36220 36220 SRR33581828 SRX28811677 SRS25048550 SRP585544 PRJNA1263423 Ginsenoside Rg1 modulates key pathways in zebrafish with glucocorticoid induced osteoporosis PRJNA1263423 Other           Con L1   strain:Not collected|isolate:Con L1|cultivar:Not collected|ecotype:Not collected|age:8 dpf stage:Larvae|collection date:2024 06 03|geo loc name:Not collected|sex:Not collected|tissue:Larvae|tmp:3|BioSampleModel:Model organism or animal                 RNA seq of Zebrafish: Control Con L1 Con L1 Control     WGS TRANSCRIPTOMIC PolyA PAIRED DNBSEQ DNBSEQ-G400   SRP585544     A3_1.fq.gz A3_2.fq.gz fastq fastq 6805948200.0 22686494.0 A3 1.fq.gz 0:150 1:150 A:1865806598;C:1548653255;G:1540767459;T:1850720888;N:0 150 150     1865806598 1548653255 1540767459 1850720888 0 SRX28811677 SRS25048550 SRA2130283 Hubei University of Medicine|Graduate school Hubei University of Medicine                       B B biological fallback assumption bgi bgi unknown poly_a unknown bulk unknown unknown   China 2025-05-15 Larval Larval Undetermined Undetermined
36221 36221 SRR33581829 SRX28811676 SRS25048549 SRP585544 PRJNA1263423 Ginsenoside Rg1 modulates key pathways in zebrafish with glucocorticoid induced osteoporosis PRJNA1263423 Other           Con Lb   strain:Not collected|isolate:Con Lb|cultivar:Not collected|ecotype:Not collected|age:8 dpf stage:Larvae|collection date:2024 06 03|geo loc name:Not collected|sex:Not collected|tissue:Larvae|tmp:2|BioSampleModel:Model organism or animal                 RNA seq of Zebrafish: Control Con Lb Con Lb Control     WGS TRANSCRIPTOMIC PolyA PAIRED DNBSEQ DNBSEQ-G400   SRP585544     A2_1.fq.gz A2_2.fq.gz fastq fastq 6807123600.0 22690412.0 A2 1.fq.gz 0:150 1:150 A:1868554012;C:1546467202;G:1539322143;T:1852780243;N:0 150 150     1868554012 1546467202 1539322143 1852780243 0 SRX28811676 SRS25048549 SRA2130283 Hubei University of Medicine|Graduate school Hubei University of Medicine                       B B biological fallback assumption bgi bgi unknown poly_a unknown bulk unknown unknown   China 2025-05-15 Larval Larval Undetermined Undetermined
36222 36222 SRR33581830 SRX28811675 SRS25048548 SRP585544 PRJNA1263423 Ginsenoside Rg1 modulates key pathways in zebrafish with glucocorticoid induced osteoporosis PRJNA1263423 Other           Con La   strain:Not collected|isolate:Con La|cultivar:Not collected|ecotype:Not collected|age:8 dpf stage:Larvae|collection date:2024 06 03|geo loc name:Not collected|sex:Not collected|tissue:Larvae|tmp:1|BioSampleModel:Model organism or animal                 RNA seq of Zebrafish: Control Con La Con La       WGS TRANSCRIPTOMIC PolyA PAIRED DNBSEQ DNBSEQ-G400   SRP585544     A1_1.fq.gz A1_2.fq.gz fastq fastq 6782914200.0 22609714.0 A1 1.fq.gz 0:150 1:150 A:1857557307;C:1544915899;G:1537431564;T:1843009430;N:0 150 150     1857557307 1544915899 1537431564 1843009430 0 SRX28811675 SRS25048548 SRA2130283 Hubei University of Medicine|Graduate school Hubei University of Medicine                       B B biological fallback assumption bgi bgi unknown poly_a unknown bulk unknown unknown   China 2025-05-15 Larval Larval Undetermined Undetermined
36227 36227 SRR33613672 SRX28842027 SRS25072222 SRP586119 PRJNA1263917 Danio rerio Transcriptome or Gene expression PRJNA1263917 Other Analyze the effect of TB KW fermentation on gene expression in high lipid zebrafish.       Danio rerio Danio rerio   strain:missing|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:7 day|dev stage:Juvenile fish|collection date:2024 04 16|geo loc name:China: Hang Zhou|sex:missing|tissue:Whole body|BioSampleModel:Model organism or animal                 RNA seq of Danio rerio HFD 3 HFD 3 Total RNA was extracted digested with DNase I and mRNA enriched. post fragmentation cDNA synthesis and library construction the final single stranded DNA nanoball library was generated for sequencing via rolling circle replication.     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED DNBSEQ DNBSEQ-T7   SRP586119     HFD-3-1.fq.gz HFD-3-2.fq.gz fastq fastq 6810755100.0 22702517.0 HFD 3 1.fq.gz 0:150 1:150 A:1804127778;C:1596175018;G:1609090701;T:1801361603;N:0 150 150     1804127778 1596175018 1609090701 1801361603 0 SRX28842027 SRS25072222 SRA2131918 Yibin University|Faculty of Quality Management and Inspection & Qua Yibin University                       B B biological fallback assumption bgi bgi unknown poly_a unknown bulk unknown unknown   China 2025-05-18 Multi-stage Multi-stage Trunk Surface Structure
36228 36228 SRR33613673 SRX28842026 SRS25072222 SRP586119 PRJNA1263917 Danio rerio Transcriptome or Gene expression PRJNA1263917 Other Analyze the effect of TB KW fermentation on gene expression in high lipid zebrafish.       Danio rerio Danio rerio   strain:missing|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:7 day|dev stage:Juvenile fish|collection date:2024 04 16|geo loc name:China: Hang Zhou|sex:missing|tissue:Whole body|BioSampleModel:Model organism or animal                 RNA seq of Danio rerio HFD 2 HFD 2 Total RNA was extracted digested with DNase I and mRNA enriched. post fragmentation cDNA synthesis and library construction the final single stranded DNA nanoball library was generated for sequencing via rolling circle replication.     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED DNBSEQ DNBSEQ-T7   SRP586119     HFD-2-1.fq.gz HFD-2-2.fq.gz fastq fastq 6826358400.0 22754528.0 HFD 2 1.fq.gz 0:150 1:150 A:1826465185;C:1582322712;G:1596188986;T:1821381517;N:0 150 150     1826465185 1582322712 1596188986 1821381517 0 SRX28842026 SRS25072222 SRA2131918 Yibin University|Faculty of Quality Management and Inspection & Qua Yibin University                       B B biological fallback assumption bgi bgi unknown poly_a unknown bulk unknown unknown   China 2025-05-18 Multi-stage Multi-stage Trunk Surface Structure
36229 36229 SRR33613674 SRX28842025 SRS25072222 SRP586119 PRJNA1263917 Danio rerio Transcriptome or Gene expression PRJNA1263917 Other Analyze the effect of TB KW fermentation on gene expression in high lipid zebrafish.       Danio rerio Danio rerio   strain:missing|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:7 day|dev stage:Juvenile fish|collection date:2024 04 16|geo loc name:China: Hang Zhou|sex:missing|tissue:Whole body|BioSampleModel:Model organism or animal                 RNA seq of Danio rerio HFD 1 HFD 1 Total RNA was extracted digested with DNase I and mRNA enriched. post fragmentation cDNA synthesis and library construction the final single stranded DNA nanoball library was generated for sequencing via rolling circle replication.     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED DNBSEQ DNBSEQ-T7   SRP586119     HFD-1-1.fq.gz HFD-1-2.fq.gz fastq fastq 6598410300.0 21994701.0 HFD 1 1.fq.gz 0:150 1:150 A:1765905584;C:1529581410;G:1542056821;T:1760866485;N:0 150 150     1765905584 1529581410 1542056821 1760866485 0 SRX28842025 SRS25072222 SRA2131918 Yibin University|Faculty of Quality Management and Inspection & Qua Yibin University                       B B biological fallback assumption bgi bgi unknown poly_a unknown bulk unknown unknown   China 2025-05-18 Multi-stage Multi-stage Trunk Surface Structure
36230 36230 SRR33613675 SRX28842024 SRS25072222 SRP586119 PRJNA1263917 Danio rerio Transcriptome or Gene expression PRJNA1263917 Other Analyze the effect of TB KW fermentation on gene expression in high lipid zebrafish.       Danio rerio Danio rerio   strain:missing|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:7 day|dev stage:Juvenile fish|collection date:2024 04 16|geo loc name:China: Hang Zhou|sex:missing|tissue:Whole body|BioSampleModel:Model organism or animal                 RNA seq of Danio rerio HFD10 3 HFD10 3 Total RNA was extracted digested with DNase I and mRNA enriched. post fragmentation cDNA synthesis and library construction the final single stranded DNA nanoball library was generated for sequencing via rolling circle replication.     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED DNBSEQ DNBSEQ-T7   SRP586119     HFD10-3-1.fq.gz HFD10-3-2.fq.gz fastq fastq 6609153300.0 22030511.0 HFD10 3 1.fq.gz 0:150 1:150 A:1780787716;C:1521027085;G:1532800826;T:1774537673;N:0 150 150     1780787716 1521027085 1532800826 1774537673 0 SRX28842024 SRS25072222 SRA2131918 Yibin University|Faculty of Quality Management and Inspection & Qua Yibin University                       B B biological fallback assumption bgi bgi unknown poly_a unknown bulk unknown unknown   China 2025-05-18 Multi-stage Multi-stage Trunk Surface Structure
36231 36231 SRR33613676 SRX28842023 SRS25072222 SRP586119 PRJNA1263917 Danio rerio Transcriptome or Gene expression PRJNA1263917 Other Analyze the effect of TB KW fermentation on gene expression in high lipid zebrafish.       Danio rerio Danio rerio   strain:missing|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:7 day|dev stage:Juvenile fish|collection date:2024 04 16|geo loc name:China: Hang Zhou|sex:missing|tissue:Whole body|BioSampleModel:Model organism or animal                 RNA seq of Danio rerio HFD10 2 HFD10 2 Total RNA was extracted digested with DNase I and mRNA enriched. post fragmentation cDNA synthesis and library construction the final single stranded DNA nanoball library was generated for sequencing via rolling circle replication.     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED DNBSEQ DNBSEQ-T7   SRP586119     HFD10-2-1.fq.gz HFD10-2-2.fq.gz fastq fastq 6605145900.0 22017153.0 HFD10 2 1.fq.gz 0:150 1:150 A:1765731508;C:1533254667;G:1545960098;T:1760199627;N:0 150 150     1765731508 1533254667 1545960098 1760199627 0 SRX28842023 SRS25072222 SRA2131918 Yibin University|Faculty of Quality Management and Inspection & Qua Yibin University                       B B biological fallback assumption bgi bgi unknown poly_a unknown bulk unknown unknown   China 2025-05-18 Multi-stage Multi-stage Trunk Surface Structure
36232 36232 SRR33613677 SRX28842022 SRS25072222 SRP586119 PRJNA1263917 Danio rerio Transcriptome or Gene expression PRJNA1263917 Other Analyze the effect of TB KW fermentation on gene expression in high lipid zebrafish.       Danio rerio Danio rerio   strain:missing|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:7 day|dev stage:Juvenile fish|collection date:2024 04 16|geo loc name:China: Hang Zhou|sex:missing|tissue:Whole body|BioSampleModel:Model organism or animal                 RNA seq of Danio rerio HFD10 1 HFD10 1 Total RNA was extracted digested with DNase I and mRNA enriched. post fragmentation cDNA synthesis and library construction the final single stranded DNA nanoball library was generated for sequencing via rolling circle replication.     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED DNBSEQ DNBSEQ-T7   SRP586119     HFD10-1-1.fq.gz HFD10-1-2.fq.gz fastq fastq 6780056700.0 22600189.0 HFD10 1 1.fq.gz 0:150 1:150 A:1819443100;C:1566081115;G:1580525465;T:1814007020;N:0 150 150     1819443100 1566081115 1580525465 1814007020 0 SRX28842022 SRS25072222 SRA2131918 Yibin University|Faculty of Quality Management and Inspection & Qua Yibin University                       B B biological fallback assumption bgi bgi unknown poly_a unknown bulk unknown unknown   China 2025-05-18 Multi-stage Multi-stage Trunk Surface Structure
36233 36233 SRR33613678 SRX28842021 SRS25072222 SRP586119 PRJNA1263917 Danio rerio Transcriptome or Gene expression PRJNA1263917 Other Analyze the effect of TB KW fermentation on gene expression in high lipid zebrafish.       Danio rerio Danio rerio   strain:missing|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:7 day|dev stage:Juvenile fish|collection date:2024 04 16|geo loc name:China: Hang Zhou|sex:missing|tissue:Whole body|BioSampleModel:Model organism or animal                 RNA seq of Danio rerio NFD 3 NFD 3 Total RNA was extracted digested with DNase I and mRNA enriched. post fragmentation cDNA synthesis and library construction the final single stranded DNA nanoball library was generated for sequencing via rolling circle replication.     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED DNBSEQ DNBSEQ-T7   SRP586119     NFD-3-1.fq.gz NFD-3-2.fq.gz fastq fastq 6677775900.0 22259253.0 NFD 3 1.fq.gz 0:150 1:150 A:1794821611;C:1541478212;G:1552820105;T:1788655972;N:0 150 150     1794821611 1541478212 1552820105 1788655972 0 SRX28842021 SRS25072222 SRA2131918 Yibin University|Faculty of Quality Management and Inspection & Qua Yibin University                       B B biological fallback assumption bgi bgi unknown poly_a unknown bulk unknown unknown   China 2025-05-18 Multi-stage Multi-stage Trunk Surface Structure
36234 36234 SRR33613679 SRX28842020 SRS25072222 SRP586119 PRJNA1263917 Danio rerio Transcriptome or Gene expression PRJNA1263917 Other Analyze the effect of TB KW fermentation on gene expression in high lipid zebrafish.       Danio rerio Danio rerio   strain:missing|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:7 day|dev stage:Juvenile fish|collection date:2024 04 16|geo loc name:China: Hang Zhou|sex:missing|tissue:Whole body|BioSampleModel:Model organism or animal                 RNA seq of Danio rerio NFD 2 NFD 2 Total RNA was extracted digested with DNase I and mRNA enriched. post fragmentation cDNA synthesis and library construction the final single stranded DNA nanoball library was generated for sequencing via rolling circle replication.     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED DNBSEQ DNBSEQ-T7   SRP586119     NFD-2-1.fq.gz NFD-2-2.fq.gz fastq fastq 6680197200.0 22267324.0 NFD 2 1.fq.gz 0:150 1:150 A:1810744167;C:1526383805;G:1539949310;T:1803119918;N:0 150 150     1810744167 1526383805 1539949310 1803119918 0 SRX28842020 SRS25072222 SRA2131918 Yibin University|Faculty of Quality Management and Inspection & Qua Yibin University                       B B biological fallback assumption bgi bgi unknown poly_a unknown bulk unknown unknown   China 2025-05-18 Multi-stage Multi-stage Trunk Surface Structure
36235 36235 SRR33613680 SRX28842019 SRS25072222 SRP586119 PRJNA1263917 Danio rerio Transcriptome or Gene expression PRJNA1263917 Other Analyze the effect of TB KW fermentation on gene expression in high lipid zebrafish.       Danio rerio Danio rerio   strain:missing|isolate:missing|breed:missing|cultivar:missing|ecotype:missing|age:7 day|dev stage:Juvenile fish|collection date:2024 04 16|geo loc name:China: Hang Zhou|sex:missing|tissue:Whole body|BioSampleModel:Model organism or animal                 RNA seq of Danio rerio NFD 1 NFD 1 Total RNA was extracted digested with DNase I and mRNA enriched. post fragmentation cDNA synthesis and library construction the final single stranded DNA nanoball library was generated for sequencing via rolling circle replication.     RNA-Seq TRANSCRIPTOMIC PolyA PAIRED DNBSEQ DNBSEQ-T7   SRP586119     NFD-1-1.fq.gz NFD-1-2.fq.gz fastq fastq 6587923800.0 21959746.0 NFD 1 1.fq.gz 0:150 1:150 A:1773646514;C:1516320091;G:1530275621;T:1767681574;N:0 150 150     1773646514 1516320091 1530275621 1767681574 0 SRX28842019 SRS25072222 SRA2131918 Yibin University|Faculty of Quality Management and Inspection & Qua Yibin University                       B B biological fallback assumption bgi bgi unknown poly_a unknown bulk unknown unknown   China 2025-05-18 Multi-stage Multi-stage Trunk Surface Structure

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