run_metadata: 3135
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 3135 | ERR1431994 | ERX1502372 | ERS1021881 | 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 131 1 pool8 | SAMEA3714732 | Wellcome Sanger Institute | ArrayExpress DevelopmentalStage:Blastula:1k cell ZFS:0000011|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 06 01|ENA last update:2015 12 16|External Id:SAMEA3714732|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 06 01T09:22:13Z|INSDC last update:2015 12 16T13:42:48Z|INSDC status:public|Submitter Id:36ad59d0 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 131 clutch 1 collected at blastula 1k cell stage plus ERCC spike mix 2 Ambion. A 8 base indexing sequence TGGCTCAG is bases 13 to 20 of read 1 followed by CG and polyT.|sample name:36ad59d0 a001 11e5 a811 68b59976a382|strain:mixed | Illumina HiSeq 2000 paired end sequencing | SC EXP 18913 3#20 | 15566035 | Illumina sequencing of library 15566035 constructed from sample accession ERS1021881 for study accession ERP013756. This is part of an Illumina multiplexed sequencing run 18913 3. This submission includes reads tagged with the sequence TGGCTCAG. | Transcriptome counting qPCR only | RNA-Seq | TRANSCRIPTOMIC | cDNA | PAIRED | ILLUMINA | Illumina HiSeq 2000 | ERP013756 | Illumina HiSeq 2000 paired end sequencing | ENA FIRST PUBLIC:2016 06 01|ENA LAST UPDATE:2018 11 16 | 18913_3#20.cram | cram | 1149171660.0 | 8839782.0 | SC RUN 18913 3#20 | 0:55 1:75 | A:304778046;C:160987572;G:156056774;T:527219195;N:130073 | 55 | 75 | 304778046 | 160987572 | 156056774 | 527219195 | 130073 | ERX1502372 | ERS1021881 | ERA640034 | European Nucleotide Archive | Wellcome Sanger Institute | 2 | 0.52762 | 0.66993 | 0.48986 | 0.13399 | 0.98159 | 0.84319 | 0.7782 | 0.59307 | 55 | 75 | B | B | biological fallback assumption | illumina | hiseq_era | 3prime | cdna_unspecified | unknown | bulk | unknown | unknown | United Kingdom | 2015-12-16 | Blastula | Embryo | Whole Organism | All anatomical structures |