run_metadata: 3348
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 3348 | ERR1396886 | ERX1468145 | ERS1021714 | 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 118 1 pool9 | SAMEA3714565 | Wellcome Sanger Institute | ArrayExpress DevelopmentalStage:Pharyngula:Prim 25 ZFS:0000031|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 03|ENA last update:2015 12 16|External Id:SAMEA3714565|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 03T14:22:16Z|INSDC last update:2015 12 16T13:41:18Z|INSDC status:public|Submitter Id:96fc5650 9ffd 11e5 913a 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a pool of 8 wild type zebrafish embryos from ZMP phenotype 118 clutch 1 collected at pharyngula prim 25 stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence GCACTGTC is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:96fc5650 9ffd 11e5 913a 68b59976a382|strain:mixed | Illumina HiSeq 2000 paired end sequencing | SC EXP 18685 6#21 | 15565771 | Illumina sequencing of library 15565771 constructed from sample accession ERS1021714 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18685 6. This submission includes reads tagged with the sequence GCACTGTC. | 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 | 18685_6#21.cram | cram | 1280108050.0 | 9846985.0 | SC RUN 18685 6#21 | 0:55 1:75 | A:344137791;C:233171556;G:237129632;T:465357901;N:311170 | 55 | 75 | 344137791 | 233171556 | 237129632 | 465357901 | 311170 | ERX1468145 | ERS1021714 | ERA612386 | European Nucleotide Archive | Wellcome Sanger Institute | 2 | 0.26487 | 0.62998 | 0.16309 | 0.18935 | 0.95499 | 0.86271 | 0.55504 | 0.53117 | 55 | 75 | T | B | mate1 technical by mapping diff | illumina | hiseq_era | 3prime | cdna_unspecified | unknown | bulk | unknown | unknown | United Kingdom | 2015-12-16 | Pharyngula | Embryo | Whole Organism | All anatomical structures |