run_metadata: 30637
This data as json
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|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 30637 | SRR27942691 | SRX23599437 | SRS20442295 | SRP489317 | PRJNA1075480 | Common and Specific Gene Regulatory Programs in Zebrafish Caudal Fin Regeneration at Single Cell Resolution | PRJNA1075480 | Other | Our goal is to delineate the transcriptomic and chromatin accessibility landscape across different cell types during the regeneration of the zebrafish caudal fin. Nuclei were isolated from caudal fin tissues at both pre injury and various stages of regeneration 1 2 4 and 6 dy post amputation dpa for single nucleus multi omics sequencing paired snATAC seq and snRNA seq. | pubmed:39809530 | 0 day post amputation replicate 1 | 0dpa fin1 | strain:Tgsp7:EGFP|age:1 year|collection date:2021 07 26|geo loc name:not applicable|sex:not determined|tissue:Caudal fin|time point and replicate:0 day post amputation replicate 1|BioSampleModel:Model organism or animal | 0dpa fin1 snRNA | 0dpa1 RNA | 0dpa1 RNA | Cadual fin tissue nuclei extraction 10x Genomics Chromium Single Cell Multiome | RNA-Seq | TRANSCRIPTOMIC SINGLE CELL | cDNA | PAIRED | ILLUMINA | Illumina NovaSeq 6000 | SRP489317 | 0dpa1-GEX-lib1_S1_L001_R1_001.fastq.gz 0dpa1-GEX-lib1_S1_L001_R2_001.fastq.gz | fastq fastq | 95106992388.0 | 534308946.0 | 0dpa1 GEX lib1 S1 L001 R1 001.fastq.gz | 0:28 1:150 | A:29570202174;C:19531427210;G:20167731244;T:25836092390;N:1539370 | 28 | 150 | 29570202174 | 19531427210 | 20167731244 | 25836092390 | 1539370 | SRX23599437 | SRS20442295 | SRA1801018 | Washington University in St. Louis School of Medicine|Genetics | Washington University in St. Louis School of Medicine | 2 | 0.02388 | 0.87039 | 0.01162 | 0.24031 | 0.98652 | 0.85354 | 0.48963 | 0.74378 | 28 | 150 | T | B | sc-like readlen | illumina | novaseq_era | unknown | cdna_unspecified | unknown | sc | single_cell_droplet | 10x | United States | 2024-02-12 | Adult | Adult | Fin | Surface Structure |