run_metadata: 11249
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 11249 | ERR10851247 | ERX10296227 | ERS14601254 | 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 | Het2 cd41pflt1p48hpf | SAMEA112483904 | Department of Hematology cancer institute ErasmusMC | ENA FIRST PUBLIC:2023 02 17|ENA LAST UPDATE:2023 02 17|External Id:SAMEA112483904|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:Het2 cd41pflt1p48hpf|age:48|broker name:ArrayExpress|cell type:hematopoietic stem cell|common name:zebrafish|developmental stage:embryo|genotype:Gata2b +/ |immunophenotype:CD41:GFP+ Flt1:RFP+|individual:pools of 3 embryos 2|organism part:liver|sample name:E MTAB 12577:Het2 cd41pflt1p48hpf|scientific name:Danio rerio|strain:TgCD41:GFP TgFlt1:RFP Gata2b KO | Illumina NovaSeq 6000 paired end sequencing; Heterozygous Gata2b versus wildtype Gata2b zebrafish embryo HSPC CD41 | E MTAB 12577:Het2 cd41pflt1p48hpf p | Het2 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:Gata2b +/ | 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 | Het2_cd41pflt1p48hpf_R1.fastq.gz Het2_cd41pflt1p48hpf_R2.fastq.gz | fastq fastq | 2999149954.0 | 14847277.0 | E MTAB 12577:Het2 cd41pflt1p48hpf R | 0:101 1:101 | A:822247269;C:656610849;G:681974696;T:838308917;N:8223 | 101 | 101 | 822247269 | 656610849 | 681974696 | 838308917 | 8223 | ERX10296227 | ERS14601254 | ERA20429817 | Department of Hematology cancer institute ErasmusMC|European Nucleotide Archive | Department of Hematology cancer institute ErasmusMC|European Nucleotide Archive | 2 | 0.94678 | 0.91473 | 0.10277 | 0.10053 | 0.76686 | 0.77684 | 0.46042 | 0.47202 | 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 |