run_metadata: 3621
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 3621 | ERR1416186 | ERX1486970 | ERS1023423 | ERP013837 | PRJEB12366 | Overexpression of prl3 in zebrafish embryos | Overexpression_of_prl3_in_zebrafish_embryos-sc-4037 | Transcriptome Analysis | Paired end sequence data from the IlluminaHiSeq was prepared from RNA of zebrafish embryos over expressing prl3 by use of outcrossed tgactin:prl3 fish comparing prl3 overexpression to wild type siblings | ArrayExpress:E ERAD 455 | ZMP phenotype 240 1 phenotypic 10 | SAMEA3716274 | Wellcome Sanger Institute | ArrayExpress DevelopmentalStage:Pharyngula:Prim 5 ZFS:0000029|ArrayExpress OrganismPart:Whole embryo|ArrayExpress Species:Danio rerio|ENA first public:2016 05 17|ENA last update:2015 12 17|External Id:SAMEA3716274|INSDC center alias:SC|INSDC center name:Wellcome Sanger Institute|INSDC first public:2016 05 17T10:08:38Z|INSDC last update:2015 12 17T16:32:10Z|INSDC status:public|Submitter Id:b67e8100 a3ff 11e5 9757 68b59976a382|common name:zebrafish|sample description:3 prime end enriched mRNA from a single phenotypically abnormal embryo from ZMP phenotype 240 clutch 1 plus ERCC spike mix 2 Ambion. A 8 base indexing sequence GAGCCAAT is bases 13 to 20 of read 1 followed by CG and 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 ph240|sample name:b67e8100 a3ff 11e5 9757 68b59976a382|strain:mixed | Illumina HiSeq 2500 paired end sequencing | SC EXP 18834 2#82 | 15658894 | Illumina sequencing of library 15658894 constructed from sample accession ERS1023423 for study accession ERP013837. This is part of an Illumina multiplexed sequencing run 18834 2. This submission includes reads tagged with the sequence GAGCCAAT. | Transcriptome counting qPCR only | RNA-Seq | TRANSCRIPTOMIC | cDNA | PAIRED | ILLUMINA | Illumina HiSeq 2500 | ERP013837 | Illumina HiSeq 2500 paired end sequencing | ENA FIRST PUBLIC:2016 05 17|ENA LAST UPDATE:2018 11 16 | 18834_2#82.cram | cram | 203755890.0 | 1567353.0 | SC RUN 18834 2#82 | 0:55 1:75 | A:54313909;C:36830761;G:39339202;T:72967706;N:304312 | 55 | 75 | 54313909 | 36830761 | 39339202 | 72967706 | 304312 | ERX1486970 | ERS1023423 | ERA624582 | European Nucleotide Archive | Wellcome Sanger Institute | 2 | 0.22292 | 0.7508 | 0.14996 | 0.20204 | 0.95166 | 0.83226 | 0.69559 | 0.52031 | 55 | 75 | T | B | mate1 technical by mapping diff | illumina | hiseq_era | 3prime | cdna_unspecified | unknown | bulk | unknown | unknown | United Kingdom | 2015-12-17 | Pharyngula | Embryo | Whole Organism | All anatomical structures |