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run_metadata

4 rows where experiment.library_selection = "cDNA", experiment.library_strategy = "RIP-Seq" and technology = "unknown"

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tissue_curation_coarse 1

tissue_curation 1

technology 1

  • unknown · 4 ✖

experiment.platform 1

experiment.library_strategy 1

  • RIP-Seq · 4 ✖

experiment.library_source 1

experiment.library_selection 1

  • cDNA · 4 ✖

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
71624 71624 SRR21849078 SRX17837652 SRS15359804 SRP401744 PRJNA888821 The RNA binding protein CSDE1 promotes hematopoietic stem and progenitor cell generation via translational control of Wnt signaling PRJNA888821 Other We identified RBP as an important post transcriptional regulator of HSPC generation and elucidated the underlying molecular mechanisms. The study also provides helpful insights into designing novel strategies for HSPC generation in vitro.       33 hpf Zebrafish Bulk RIP seq.Flag hCsde1 2 Zebrafish 33 hpf.Bulk RIP seq.Flag hCsde1 2   breed:Zebrafish|age:33 hpf|dev stage:HSPC generation|sex:pooled male and female|tissue:whole embryos|treatment:8|BioSampleModel:Model organism or animal                 33 hpf Zebrafish Bulk RIP seq.Flag hCsde1 2 Flag hCsde1 2 Flag hCsde1 2 RIP Seq     RIP-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP401744     Flag-hCsde1-2_1.fq.gz Flag-hCsde1-2_2.fq.gz fastq fastq 7253178600.0 24177262.0 Flag hCsde1 2 1.fq.gz 0:150 1:150 A:1490001899;C:2113749179;G:2152941566;T:1496406491;N:79465 150 150     1490001899 2113749179 2152941566 1496406491 79465 SRX17837652 SRS15359804 SRA1516844 Institute of Hematology & Blood Diseases Hospital|State Key Laboratory of Experimental Hematology Institute of Hematology & Blood Diseases Hospital 2 0.9907 0.98973 0.51575 0.5119 0.9459 0.94631 0.80609 0.80353 150 150 B B biological fallback assumption illumina novaseq_era unknown cdna_unspecified unknown bulk unknown unknown   China 2022-10-09 Pharyngula Embryo Whole Organism All anatomical structures
71625 71625 SRR21849079 SRX17837651 SRS15359803 SRP401744 PRJNA888821 The RNA binding protein CSDE1 promotes hematopoietic stem and progenitor cell generation via translational control of Wnt signaling PRJNA888821 Other We identified RBP as an important post transcriptional regulator of HSPC generation and elucidated the underlying molecular mechanisms. The study also provides helpful insights into designing novel strategies for HSPC generation in vitro.       33 hpf Zebrafish Bulk RIP seq.Flag hCsde1 1 Zebrafish 33 hpf.Bulk RIP seq.Flag hCsde1 1   breed:Zebrafish|age:33 hpf|dev stage:HSPC generation|sex:pooled male and female|tissue:whole embryos|treatment:7|BioSampleModel:Model organism or animal                 33 hpf Zebrafish Bulk RIP seq.Flag hCsde1 1 Flag hCsde1 1 Flag hCsde1 1 RIP Seq     RIP-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP401744     Flag-hCsde1-1_1.fq.gz Flag-hCsde1-1_2.fq.gz fastq fastq 5032252500.0 16774175.0 Flag hCsde1 1 1.fq.gz 0:150 1:150 A:1150344713;C:1135461821;G:1687878347;T:1058543429;N:24190 150 150     1150344713 1135461821 1687878347 1058543429 24190 SRX17837651 SRS15359803 SRA1516844 Institute of Hematology & Blood Diseases Hospital|State Key Laboratory of Experimental Hematology Institute of Hematology & Blood Diseases Hospital 2 0.22813 0.23161 0.06226 0.06317 0.92801 0.92719 0.73744 0.71685 150 150 B B biological fallback assumption illumina novaseq_era unknown cdna_unspecified unknown bulk unknown unknown   China 2022-10-09 Pharyngula Embryo Whole Organism All anatomical structures
71626 71626 SRR21849080 SRX17837650 SRS15359801 SRP401744 PRJNA888821 The RNA binding protein CSDE1 promotes hematopoietic stem and progenitor cell generation via translational control of Wnt signaling PRJNA888821 Other We identified RBP as an important post transcriptional regulator of HSPC generation and elucidated the underlying molecular mechanisms. The study also provides helpful insights into designing novel strategies for HSPC generation in vitro.       33 hpf Zebrafish Bulk RIP seq.Control2 Zebrafish 33 hpf.Bulk RIP seq.Control2   breed:Zebrafish|age:33 hpf|dev stage:HSPC generation|sex:pooled male and female|tissue:whole embryos|treatment:6|BioSampleModel:Model organism or animal                 33 hpf Zebrafish Bulk RIP seq.Control2 Control2 Control2 RIP Seq     RIP-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP401744     Control2_1.fq.gz Control2_2.fq.gz fastq fastq 7884108600.0 26280362.0 Control2 1.fq.gz 0:150 1:150 A:1586894082;C:2334065454;G:2372509011;T:1590552802;N:87251 150 150     1586894082 2334065454 2372509011 1590552802 87251 SRX17837650 SRS15359801 SRA1516844 Institute of Hematology & Blood Diseases Hospital|State Key Laboratory of Experimental Hematology Institute of Hematology & Blood Diseases Hospital 2 0.98745 0.98691 0.48401 0.48011 0.94095 0.94113 0.74796 0.74138 150 150 B B biological fallback assumption illumina novaseq_era unknown cdna_unspecified unknown bulk unknown unknown   China 2022-10-09 Pharyngula Embryo Whole Organism All anatomical structures
71627 71627 SRR21849081 SRX17837649 SRS15359800 SRP401744 PRJNA888821 The RNA binding protein CSDE1 promotes hematopoietic stem and progenitor cell generation via translational control of Wnt signaling PRJNA888821 Other We identified RBP as an important post transcriptional regulator of HSPC generation and elucidated the underlying molecular mechanisms. The study also provides helpful insights into designing novel strategies for HSPC generation in vitro.       33 hpf Zebrafish Bulk RIP seq.Control1 Zebrafish 33 hpf.Bulk RIP seq.Control1   breed:Zebrafish|age:33 hpf|dev stage:HSPC generation|sex:pooled male and female|tissue:whole embryos|treatment:5|BioSampleModel:Model organism or animal                 33 hpf Zebrafish Bulk RIP seq.Control1 Control1 Control1 RIP Seq     RIP-Seq TRANSCRIPTOMIC cDNA PAIRED ILLUMINA Illumina NovaSeq 6000   SRP401744     Control1_1.fq.gz Control1_2.fq.gz fastq fastq 6838591200.0 22795304.0 Control1 1.fq.gz 0:150 1:150 A:1483754703;C:1578056923;G:2412990846;T:1363739708;N:49020 150 150     1483754703 1578056923 2412990846 1363739708 49020 SRX17837649 SRS15359800 SRA1516844 Institute of Hematology & Blood Diseases Hospital|State Key Laboratory of Experimental Hematology Institute of Hematology & Blood Diseases Hospital 2 0.34381 0.34082 0.09181 0.09135 0.95144 0.95148 0.81928 0.81462 150 150 B B biological fallback assumption illumina novaseq_era unknown cdna_unspecified unknown bulk unknown unknown   China 2022-10-09 Pharyngula Embryo Whole Organism All anatomical structures

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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");;