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run_metadata

6 rows where experiment.library_selection = "other", experiment.platform = "BGISEQ" and technology = "unknown"

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tissue_curation_coarse 1

tissue_curation 1

technology 1

  • unknown · 6 ✖

experiment.platform 1

  • BGISEQ · 6 ✖

experiment.library_strategy 1

experiment.library_source 1

experiment.library_selection 1

  • other · 6 ✖

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
52210 52210 SRR9021058 SRX5799154 SRS4730324 SRP195685 PRJNA541367 Global transcriptomic analysis of zebrafish glucagon receptor mutant PRJNA541367 Other We performed RNA sequencing RNA seq analysis of whole fish to provide a comprehensive view of its global transcriptomic regulation in this study.         WT 1   replicate:biological replicate 1|strain:AB|age:7 days|sex:not applicable|tissue:total|BioSampleModel:Model organism or animal                 Diano rerio transcriptome WT 1 20190506 1 WT 1 20190506 1 RNA seq of WT Diano rerio     RNA-Seq TRANSCRIPTOMIC other SINGLE BGISEQ BGISEQ-500   SRP195685   loader:fastq load.py WT1.1.fq fastq 1094498950.0 21889979.0 WT1.1.fq 0:50 A:291195764;C:255539280;G:262638316;T:284737693;N:387897 50       291195764 255539280 262638316 284737693 387897 SRX5799154 SRS4730324 SRA883435 Xiamen University|School of Pharmaceutical Sciences Xiamen University 1 0.94195   0.09713   0.66689   0.47749   50   B   usable mapping rate bgi bgi unknown random_priming unknown bulk unknown unknown   China 2020-01-18 Larval Larval Undetermined Undetermined
52211 52211 SRR9021059 SRX5799153 SRS4730323 SRP195685 PRJNA541367 Global transcriptomic analysis of zebrafish glucagon receptor mutant PRJNA541367 Other We performed RNA sequencing RNA seq analysis of whole fish to provide a comprehensive view of its global transcriptomic regulation in this study.         WT 2   replicate:biological replicate 2|strain:AB|age:7 days|sex:not applicable|tissue:total|BioSampleModel:Model organism or animal                 Diano rerio transcriptome WT 2 20190506 2 WT 2 20190506 2 RNA seq of WT Diano rerio     RNA-Seq TRANSCRIPTOMIC other SINGLE BGISEQ BGISEQ-500   SRP195685   loader:fastq load.py WT2.1.fq fastq 1095133200.0 21902664.0 WT2.1.fq 0:50 A:290594757;C:255644044;G:259681140;T:288014102;N:1199157 50       290594757 255644044 259681140 288014102 1199157 SRX5799153 SRS4730323 SRA883435 Xiamen University|School of Pharmaceutical Sciences Xiamen University 1 0.93368   0.09166   0.67085   0.46523   50   B   usable mapping rate bgi bgi unknown random_priming unknown bulk unknown unknown   China 2020-01-18 Larval Larval Undetermined Undetermined
52212 52212 SRR9021060 SRX5799152 SRS4730322 SRP195685 PRJNA541367 Global transcriptomic analysis of zebrafish glucagon receptor mutant PRJNA541367 Other We performed RNA sequencing RNA seq analysis of whole fish to provide a comprehensive view of its global transcriptomic regulation in this study.         WT 3   replicate:biological replicate 3|strain:AB|age:7 days|sex:not applicable|tissue:total|BioSampleModel:Model organism or animal                 Diano rerio transcriptome WT 3 20190506 3 WT 3 20190506 3 RNA seq of WT Diano rerio     RNA-Seq TRANSCRIPTOMIC other SINGLE BGISEQ BGISEQ-500   SRP195685   loader:fastq load.py WT3.1.fq fastq 1096083900.0 21921678.0 WT3.1.fq 0:50 A:290332094;C:256993500;G:263043956;T:285349722;N:364628 50       290332094 256993500 263043956 285349722 364628 SRX5799152 SRS4730322 SRA883435 Xiamen University|School of Pharmaceutical Sciences Xiamen University 1 0.94147   0.10157   0.66135   0.47301   50   B   usable mapping rate bgi bgi unknown random_priming unknown bulk unknown unknown   China 2020-01-18 Larval Larval Undetermined Undetermined
52213 52213 SRR9021061 SRX5799151 SRS4730320 SRP195685 PRJNA541367 Global transcriptomic analysis of zebrafish glucagon receptor mutant PRJNA541367 Other We performed RNA sequencing RNA seq analysis of whole fish to provide a comprehensive view of its global transcriptomic regulation in this study.         gcgr 1   replicate:biological replicate 1|strain:AB|age:7 days|sex:not applicable|tissue:total|BioSampleModel:Model organism or animal                 Diano rerio transcriptome gcgr 1 20190506 1 gcgr 1 20190506 1 RNA seq of Diano rerio with gcgr mutant     RNA-Seq TRANSCRIPTOMIC other SINGLE BGISEQ BGISEQ-500   SRP195685   loader:fastq load.py gcgr1.1.fq fastq 1096307200.0 21926144.0 gcgr1.1.fq 0:50 A:288839446;C:258297625;G:264630675;T:284199738;N:339716 50       288839446 258297625 264630675 284199738 339716 SRX5799151 SRS4730320 SRA883435 Xiamen University|School of Pharmaceutical Sciences Xiamen University 1 0.94131   0.09307   0.67574   0.46993   50   B   usable mapping rate bgi bgi unknown random_priming unknown bulk unknown unknown   China 2020-01-18 Larval Larval Undetermined Undetermined
52214 52214 SRR9021062 SRX5799150 SRS4730321 SRP195685 PRJNA541367 Global transcriptomic analysis of zebrafish glucagon receptor mutant PRJNA541367 Other We performed RNA sequencing RNA seq analysis of whole fish to provide a comprehensive view of its global transcriptomic regulation in this study.         gcgr 2   replicate:biological replicate 2|strain:AB|age:7 days|sex:not applicable|tissue:total|BioSampleModel:Model organism or animal                 Diano rerio transcriptome gcgr 2 20190506 2 gcgr 2 20190506 2 RNA seq of Diano rerio with gcgr mutant     RNA-Seq TRANSCRIPTOMIC other SINGLE BGISEQ BGISEQ-500   SRP195685   loader:fastq load.py gcgr2.1.fq fastq 1094410100.0 21888202.0 gcgr2.1.fq 0:50 A:290062779;C:256358687;G:264488431;T:282812212;N:687991 50       290062779 256358687 264488431 282812212 687991 SRX5799150 SRS4730321 SRA883435 Xiamen University|School of Pharmaceutical Sciences Xiamen University 1 0.94074   0.09337   0.67633   0.46861   50   B   usable mapping rate bgi bgi unknown random_priming unknown bulk unknown unknown   China 2020-01-18 Larval Larval Undetermined Undetermined
52215 52215 SRR9021063 SRX5799149 SRS4730319 SRP195685 PRJNA541367 Global transcriptomic analysis of zebrafish glucagon receptor mutant PRJNA541367 Other We performed RNA sequencing RNA seq analysis of whole fish to provide a comprehensive view of its global transcriptomic regulation in this study.         gcgr 3   replicate:biological replicate 3|strain:AB|age:7 days|sex:not applicable|tissue:total|BioSampleModel:Model organism or animal                 Diano rerio transcriptome gcgr 3 20190506 3 gcgr 3 20190506 3 RNA seq of Diano rerio with gcgr mutant     RNA-Seq TRANSCRIPTOMIC other SINGLE BGISEQ BGISEQ-500   SRP195685   loader:fastq load.py gcgr3.1.fq fastq 1094284800.0 21885696.0 gcgr3.1.fq 0:50 A:289313514;C:257096636;G:264011408;T:283143600;N:719642 50       289313514 257096636 264011408 283143600 719642 SRX5799149 SRS4730319 SRA883435 Xiamen University|School of Pharmaceutical Sciences Xiamen University 1 0.94222   0.09557   0.67521   0.46664   50   B   usable mapping rate bgi bgi unknown random_priming unknown bulk unknown unknown   China 2020-01-18 Larval Larval Undetermined Undetermined

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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");;