run_metadata: 3207
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 3207 | ERR1397027 | ERX1468286 | ERS1021950 | ERP013756 | PRJEB12296 | Baseline expression from transcriptional profiling of zebrafish developmental stages 2 | Baseline_expression_from_transcriptional_profiling_of_zebrafish_developmental_stages_2-sc-4029 | Transcriptome Analysis | Paired end sequence data from the IlluminaHiSeq was prepared from RNA of wild type zebrafish embryos at different stages of development for baseline transcriptional profiling | ArrayExpress:E ERAD 453 | ZMP phenotype 133 1 pool8 | SAMEA3714801 | Wellcome Sanger Institute | ArrayExpress DevelopmentalStage:Zygote:1 cell ZFS:0000001|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 16|External Id:SAMEA3714801|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:22:15Z|INSDC last update:2015 12 16T13:43:22Z|INSDC status:public|Submitter Id:87a3d260 a001 11e5 a811 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a pool of 8 wild type zebrafish embryos from ZMP phenotype 133 clutch 1 collected at zygote 1 cell stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TGCGTGAA is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:87a3d260 a001 11e5 a811 68b59976a382|strain:mixed | Illumina HiSeq 2000 paired end sequencing | SC EXP 18715 6#19 | 15566201 | Illumina sequencing of library 15566201 constructed from sample accession ERS1021950 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18715 6. This submission includes reads tagged with the sequence TGCGTGAA. | Transcriptome counting qPCR only | RNA-Seq | TRANSCRIPTOMIC | cDNA | PAIRED | ILLUMINA | Illumina HiSeq 2000 | ERP013756 | Illumina HiSeq 2000 paired end sequencing | ENA FIRST PUBLIC:2016 05 03|ENA LAST UPDATE:2018 11 16 | 18715_6#19.cram | cram | 1016290080.0 | 7817616.0 | SC RUN 18715 6#19 | 0:55 1:75 | A:260240299;C:171478739;G:166987743;T:417571647;N:11652 | 55 | 75 | 260240299 | 171478739 | 166987743 | 417571647 | 11652 | ERX1468286 | ERS1021950 | ERA612386 | European Nucleotide Archive | Wellcome Sanger Institute | 2 | 0.35515 | 0.63046 | 0.24442 | 0.11538 | 0.96613 | 0.87612 | 0.72922 | 0.65047 | 55 | 75 | T | B | mate1 technical by mapping diff | illumina | hiseq_era | 3prime | cdna_unspecified | unknown | bulk | unknown | unknown | United Kingdom | 2015-12-16 | Zygote | Embryo | Oocyte | Reproductive System |