run_metadata: 10054
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 10054 | ERR4648666 | ERX4572368 | ERS5128748 | 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 | 13K1 | SAMEA7370298 | Paris Brain Institute | ENA FIRST PUBLIC:2020 10 14T17:05:13Z|ENA LAST UPDATE:2020 09 30T20:50:27Z|External Id:SAMEA7370298|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 9615:13K1|age:48|broker name:ArrayExpress|common name:zebrafish|developmental stage:embryo stage|genetic modification:indel|genotype:scospondin[icm13] / |individual:30|organism part:whole organism|phenotype:curled|sample name:E MTAB 9615:13K1|scientific name:Danio rerio|sex:not available|strain:AB | NextSeq 500 paired end sequencing; scospondin mutant embryos | E MTAB 9615:13K1 p | 13K1 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] / | 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 | 13K1_S2_L003_R1_001.fastq.gz 13K1_S2_L003_R2_001.fastq.gz | fastq fastq | 1692052752.0 | 11131926.0 | E MTAB 9615:13K1 S2 L003 R | 0:76 1:76 | A:461375866;C:382427180;G:387578702;T:460499241;N:171763 | 76 | 76 | 461375866 | 382427180 | 387578702 | 460499241 | 171763 | ERX4572368 | ERS5128748 | ERA2937926 | Paris Brain Institute|European Nucleotide Archive | Paris Brain Institute|European Nucleotide Archive | 2 | 0.95194 | 0.95208 | 0.1245 | 0.11189 | 0.701 | 0.70457 | 0.49831 | 0.49526 | 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 |