run_metadata: 10038
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 10038 | ERR4648682 | ERX4572372 | ERS5128752 | 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 | 13S5 | SAMEA7370302 | Paris Brain Institute | ENA FIRST PUBLIC:2020 10 14T17:05:13Z|ENA LAST UPDATE:2020 09 30T20:50:27Z|External Id:SAMEA7370302|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 9615:13S5|age:48|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo stage|genetic modification:indel|genotype:scospondin[icm13] +/+ or +/ |individual:30|organism part:whole organism|phenotype:curled|sample name:E MTAB 9615:13S5|scientific name:Danio rerio|sex:not available|strain:AB | NextSeq 500 paired end sequencing; scospondin mutant embryos | E MTAB 9615:13S5 p | 13S5 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[icm13] +/+ 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 | 13S5_S5_L003_R1_001.fastq.gz 13S5_S5_L003_R2_001.fastq.gz | fastq fastq | 1782008784.0 | 11723742.0 | E MTAB 9615:13S5 S5 L003 R | 0:76 1:76 | A:486839858;C:403504903;G:406596413;T:484891715;N:175895 | 76 | 76 | 486839858 | 403504903 | 406596413 | 484891715 | 175895 | ERX4572372 | ERS5128752 | ERA2937926 | Paris Brain Institute|European Nucleotide Archive | Paris Brain Institute|European Nucleotide Archive | 2 | 0.94547 | 0.94921 | 0.1273 | 0.12142 | 0.67487 | 0.67724 | 0.48324 | 0.48226 | 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 |