run_metadata: 9570
This data as json
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 9570 | ERR340673 | ERX313522 | ERS225223 | ERP001656 | PRJEB3181 | Transcriptome profiling of mutants from the zebrafish genome project | Transcriptome_profiling_of_mutants_from_the_zebrafish_genome_project-sc-2012-08-01T09:58:08Z-2311 | Transcriptome Analysis | Paired end sequence data from the IlluminaHiSeq was prepared from mutant and wild type zebrafish embryos from the Zebrafish Mutation Project for transcriptome profiling | SAMEA1972389 | SC | ArrayExpress DevelopmentalStage:Hatching : Long pec ZFS:0000033|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2013 09 16T10:16:26Z|ENA LAST UPDATE:2018 03 08T16:20:47Z|External Id:SAMEA1972389|INSDC center name:SC|INSDC first public:2013 09 16T10:16:26Z|INSDC last update:2018 03 08T16:20:47Z|INSDC status:public|Submitter Id:ZMP phenotype 13 5 mutant sc 2013 03 25T15:42:25Z 1603266|common name:zebrafish|sample description:3 prime end enriched mRNA from morphologically abnormal embryos from ZMP phenotype 13 clutch 5. A 5 base indexing sequence AACCG is bases 6 to 10 of read 1 followed by polyT. More information describing the mutant phenotype can be found at the Wellcome Trust Sanger Institute Zebrafish Mutation Project website http://www.sanger.ac.uk/cgi bin/Projects/D rerio/zmp/search.pl?q=zmp ph13|sample name:ZMP phenotype 13 5 mutant sc 2013 03 25T15:42:25Z 1603266|scientific name:Danio rerio|strain:mixed | 1 | SC EXP 9590 8#9 | 7050301 | Illumina sequencing of library 7050301 constructed from sample accession ERS225223 for study accession ERP001656. This is part of an Illumina multiplexed sequencing run 9590 8. This submission includes reads tagged with the sequence AACCG. | qPCR only | RNA-Seq | TRANSCRIPTOMIC | cDNA | PAIRED | ILLUMINA | Illumina HiSeq 2000 | ERP001656 | Illumina HiSeq 2000 paired end sequencing | ENA FIRST PUBLIC:2013 09 16|ENA LAST UPDATE:2018 11 16 | 9590_8#9.bam | bam | 1897906220.0 | 13556473.0 | SC RUN 9590 8#9 | 0:65 1:75 | A:551846148;C:302042386;G:358998936;T:683903340;N:1115410 | 65 | 75 | 551846148 | 302042386 | 358998936 | 683903340 | 1115410 | ERX313522 | ERS225223 | ERA250651 | SC | Wellcome Sanger Institute | 2 | 0.54092 | 0.76684 | 0.22879 | 0.24327 | 0.93212 | 0.78535 | 0.5663 | 0.59117 | 65 | 75 | B | B | mate1-mate2 similar by mapping diff | illumina | hiseq_era | 3prime | cdna_unspecified | unknown | bulk | unknown | unknown | United Kingdom | 2013-09-16 | Hatching | Embryo | Whole Organism | All anatomical structures |