run_metadata: 70958
This data as json
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|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 70958 | SRR21006678 | SRX17023407 | SRS14607343 | SRP390914 | PRJNA868349 | Hematopoietic stem and progenitor cell heterogeneity is inherited from the embryonic hemogenic endothelium [RNA seq] | GSE210940 | Other | Investigate the role of miR128 in the EHT process and the formation of nHSPCs Overall design: Comparative gene expression analysis of RNA seq data for WT and MT samples for miRNA128 in Human and Fish | parent bioproject:PRJNA868347 | pubmed:37460694 | miRNA 128 mutant 26HPF HMT2 | GSM6443142 | source name:head|cell line:kdrl:GFP+|cell type:endothelial cells|genotype:miRNA 128 mutant|tissue:head|time:26HPF|geo loc name:missing|collection date:missing | miRNA 128 mutant 26HPF HMT2 | Sequence reads were trimmed for adaptor sequence/low quality sequence using BBDUK Trimmed sequence reads were mapped to GRCz10 /GRCh38 using STAR Read count extraction was performed using HTSEQ Differential gene expression was performed using Deseq2 Assembly: GRCz10 /GRCh38 Supplementary files format and content: tab delimited text files include read counts for each Sample | head | RNA was isolated with the Lexogen SPLIT RNA Extraction Kit and 10ng were used to prepare libraries. RNA libraries for RNA seq were prepared using Lexogen QuantSeq 3′ mRNA Seq kit following manufacturer's protocols. | cell line:kdrl:GFP+|cell type:endothelial cells|genotype:miRNA 128 mutant|tissue:head|time:26HPF | GSM6443142 | GSM6443142: miRNA 128 mutant 26HPF HMT2; Danio rerio; RNA Seq | GSM6443142 r1 | GSM6443142 | 1 | RNA was isolated with the Lexogen SPLIT RNA Extraction Kit and 10ng were used to prepare libraries. RNA libraries for RNA seq were prepared using Lexogen QuantSeq 3′ mRNA Seq kit following manufacturer's protocols. | RNA-Seq | TRANSCRIPTOMIC | cDNA | SINGLE | ILLUMINA | Illumina HiSeq 2500 | SRP390914 | 26128H2_S40_L002_R1_001.fastq.gz | fastq | 218090056.0 | 2869606.0 | GSM6443142 r1 | 0:76 1:0 | A:65896736;C:44617231;G:47882052;T:59689601;N:4436 | 76 | 0 | 65896736 | 44617231 | 47882052 | 59689601 | 4436 | SRX17023407 | SRS14607343 | SRA1472938 | Nicoli Lab, Genetics/Internal Medicine, Yale University | Nicoli Lab, Genetics/Internal Medicine, Yale University | 1 | 0.85882 | 0.14403 | 0.80894 | 0.65974 | 76 | B | usable mapping rate | illumina | hiseq_era | 3prime | small_rna | lexogen | bulk | unknown | unknown | United States | 2022-08-10 | Pharyngula | Embryo | Head | Nervous System |