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run_metadata

9 rows where experiment.library_selection = "PolyA", experiment.platform = "DNBSEQ" and tissue_curation = "Trunk"

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tissue_curation_coarse 1

tissue_curation 1

  • Trunk · 9 ✖

technology 1

experiment.platform 1

  • DNBSEQ · 9 ✖

experiment.library_strategy 1

experiment.library_source 1

experiment.library_selection 1

  • PolyA · 9 ✖

experiment.library_layout 1

devstage_curation_coarse 1

devstage_curation 1

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