run_metadata: 11247
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 11247 | ERR10851249 | ERX10296229 | ERS14601256 | ERP144652 | PRJEB59599 | Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 | E-MTAB-12577 | Transcriptome Analysis | Comparison between wildtype and Gata2b heterozygous zebrafish HSPCs | ENA FIRST PUBLIC:2023 02 17|ENA LAST UPDATE:2023 02 17 | Protocols: Embryos were dissociated using Collagenase 1 2 and 4 and sorted using a FACS Aria III in trizol RNA was isolated from trizol RNA was smarter amplified | WT1 cd41pflt1p48hpf | SAMEA112483906 | Department of Hematology cancer institute ErasmusMC | ENA FIRST PUBLIC:2023 02 17|ENA LAST UPDATE:2023 02 17|External Id:SAMEA112483906|INSDC center alias:Department of Hematology cancer institute ErasmusMC|INSDC center name:Department of Hematology cancer institute ErasmusMC|INSDC first public:2023 02 17T00:21:53Z|INSDC last update:2023 02 17T00:21:53Z|INSDC status:public|Submitter Id:E MTAB 12577:WT1 cd41pflt1p48hpf|age:48|broker name:ArrayExpress|cell type:hematopoietic stem cell|common name:zebrafish|developmental stage:embryo|genotype:wild type genotype|immunophenotype:CD41:GFP+ Flt1:RFP+|individual:pools of 3 embryos 4|organism part:liver|sample name:E MTAB 12577:WT1 cd41pflt1p48hpf|scientific name:Danio rerio|strain:TgCD41:GFP TgFlt1:RFP WT | Illumina NovaSeq 6000 paired end sequencing; Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 | E MTAB 12577:WT1 cd41pflt1p48hpf p | WT1 cd41pflt1p48hpf p | Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 | Embryos were dissociated using Collagenase 1 2 and 4 and sorted using a FACS Aria III in trizol RNA was isolated from trizol RNA was smarter amplified | Experimental Factor: genotype:wild type genotype | RNA-Seq | TRANSCRIPTOMIC | cDNA | PAIRED | ILLUMINA | Illumina NovaSeq 6000 | ERP144652 | Illumina NovaSeq 6000 paired end sequencing; Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 | ENA FIRST PUBLIC:2023 02 17|ENA LAST UPDATE:2023 02 17 | WT1_cd41pflt1p48hpf_R1.fastq.gz WT1_cd41pflt1p48hpf_R2.fastq.gz | fastq fastq | 3248647426.0 | 16082413.0 | E MTAB 12577:WT1 cd41pflt1p48hpf R | 0:101 1:101 | A:883030193;C:725566673;G:750551574;T:889489774;N:9212 | 101 | 101 | 883030193 | 725566673 | 750551574 | 889489774 | 9212 | ERX10296229 | ERS14601256 | ERA20429817 | Department of Hematology cancer institute ErasmusMC|European Nucleotide Archive | Department of Hematology cancer institute ErasmusMC|European Nucleotide Archive | 2 | 0.91568 | 0.8915 | 0.09819 | 0.09602 | 0.86634 | 0.8706 | 0.48887 | 0.48731 | 101 | 101 | B | B | biological fallback assumption | illumina | novaseq_era | full_length | cdna_unspecified | smarter | bulk | unknown | unknown | Netherlands | 2023-02-17 | Hatching | Embryo | Embryo Imprecise | All anatomical structures |