run_metadata: 10015
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 10015 | ERR4648707 | ERX4572378 | ERS5128758 | ERP124248 | PRJEB40594 | scospondin mutant embryos | E-MTAB-9615 | Transcriptome Analysis | Transcriptome comparison of scospondin mutants embryos with wild type siblings | ENA FIRST PUBLIC:2020 10 14|ENA LAST UPDATE:2020 09 30 | Protocols: Anesthesia in water euthanasia and dissociation through seringe needle Trizol extraction isopropanol precipitation and RNAeasy column Qiagen KAPA mRNA HyperPrep Kit Roche | 15S5 | SAMEA7370308 | Paris Brain Institute | ENA FIRST PUBLIC:2020 10 14T17:05:13Z|ENA LAST UPDATE:2020 09 30T20:50:27Z|External Id:SAMEA7370308|INSDC center name:Paris Brain Institute|INSDC first public:2020 10 14T17:05:13Z|INSDC last update:2020 09 30T20:50:27Z|INSDC status:public|Submitter Id:E MTAB 9615:15S5|age:48|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo stage|genetic modification:indel|genotype:scospondin[icm15] +/+ or +/ |individual:30|organism part:whole organism|phenotype:curled|sample name:E MTAB 9615:15S5|scientific name:Danio rerio|sex:not available|strain:AB | NextSeq 500 paired end sequencing; scospondin mutant embryos | E MTAB 9615:15S5 p | 15S5 p | scospondin mutant embryos | Anesthesia in water euthanasia and dissociation through seringe needle Trizol extraction isopropanol precipitation and RNAeasy column Qiagen KAPA mRNA HyperPrep Kit Roche | Experimental Factor: genotype:scospondin[icm15] +/+ or +/ | RNA-Seq | TRANSCRIPTOMIC | PolyA | PAIRED | ILLUMINA | NextSeq 500 | ERP124248 | NextSeq 500 paired end sequencing; scospondin mutant embryos | ENA FIRST PUBLIC:2020 10 14|ENA LAST UPDATE:2020 10 02 | 15S5_S7_L004_R1_001.fastq.gz 15S5_S7_L004_R2_001.fastq.gz | fastq fastq | 1681600624.0 | 11063162.0 | E MTAB 9615:15S5 S7 L004 R | 0:76 1:76 | A:452919887;C:387692803;G:390415798;T:450439351;N:132785 | 76 | 76 | 452919887 | 387692803 | 390415798 | 450439351 | 132785 | ERX4572378 | ERS5128758 | ERA2937926 | Paris Brain Institute|European Nucleotide Archive | Paris Brain Institute|European Nucleotide Archive | 2 | 0.94692 | 0.95086 | 0.14315 | 0.13615 | 0.67992 | 0.68272 | 0.49657 | 0.49082 | 76 | 76 | B | B | biological fallback assumption | illumina | nextseq | unknown | poly_a | unknown | bulk | unknown | unknown | France | 2020-09-30 | Undetermined | Embryo | Whole Organism | All anatomical structures |