run_metadata: 9483
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 9483 | ERR381748 | ERX353994 | ERS336314 | 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 | SAMEA2167717 | SC | ArrayExpress DevelopmentalStage:Hatching : Long pec ZFS:0000033|ArrayExpress OrganismPart:Whole Embryo|ArrayExpress Species:Danio rerio|ENA FIRST PUBLIC:2013 12 09T10:10:17Z|ENA LAST UPDATE:2018 03 08T16:38:27Z|External Id:SAMEA2167717|INSDC center name:SC|INSDC first public:2013 12 09T10:10:17Z|INSDC last update:2018 03 08T16:38:27Z|INSDC status:public|Submitter Id:ZMP phenotype 23 2 sibling sc 2013 08 08T15:31:30Z 1677423|common name:zebrafish|sample description:3 prime end enriched mRNA from morphologically normal sibling embryos from ZMP phenotype 23 clutch 2. A 5 base indexing sequence GCACG 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 ph23|sample name:ZMP phenotype 23 2 sibling sc 2013 08 08T15:31:30Z 1677423|scientific name:Danio rerio|strain:mixed | Illumina HiSeq 2000 paired end sequencing | SC EXP 10638 5#4 | 7938303 | Illumina sequencing of library 7938303 constructed from sample accession ERS336314 for study accession ERP001656. This is part of an Illumina multiplexed sequencing run 10638 5. This submission includes reads tagged with the sequence GCACG. | qPCR only | RNA-Seq | TRANSCRIPTOMIC | cDNA | PAIRED | ILLUMINA | Illumina HiSeq 2000 | ERP001656 | Illumina HiSeq 2000 paired end sequencing | ENA FIRST PUBLIC:2013 12 09|ENA LAST UPDATE:2018 11 16 | 10638_5#4.bam | bam | 2955554000.0 | 21111100.0 | SC RUN 10638 5#4 | 0:65 1:75 | A:827752497;C:488639633;G:543291795;T:1095399888;N:470187 | 65 | 75 | 827752497 | 488639633 | 543291795 | 1095399888 | 470187 | ERX353994 | ERS336314 | ERA272628 | SC | Wellcome Sanger Institute | 2 | 0.6308 | 0.86125 | 0.2668 | 0.30791 | 0.89469 | 0.76834 | 0.6463 | 0.62603 | 65 | 75 | B | B | mate1-mate2 similar by mapping diff | illumina | hiseq_era | 3prime | cdna_unspecified | unknown | bulk | unknown | unknown | United Kingdom | 2013-12-09 | Hatching | Embryo | Whole Organism | All anatomical structures |