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Status |
Public on May 15, 2024 |
Title |
RNA-seq of cKit+ cells from Mga(+/-) C57/B6 mice #4 |
Sample type |
SRA |
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Source name |
HSC
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Organism |
Mus musculus |
Characteristics |
cell type: HSC genotype: Mga(+/-) strain: C57/B6
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Extracted molecule |
total RNA |
Extraction protocol |
RNA was extracted using a quick-RNA Microprep kit (Zymo Research, CA). Libraries were prepared from total RNA with the TruSeq Stranded Total RNA Library Prep Kit according to the manufacturer’s instructions (Illumina, PN 20020599).
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Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina NovaSeq 6000 |
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Description |
SJ_MGA_mouse_RSEM_gene_count_final.txt SJMMAML076940_D1_HET
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Data processing |
RNA-Seq reads were mapped to GRCh38/hg38 human genome assembly using STAR v2.7.9a Gene expression count matrix was generated using RSEM (v1.3.0) The count data were transformed to log2-counts per million (log2CPM) using Voom method available from R package Limma (v3.50.3). Limma was also used to perform differential expression analysis between DMSO and dTAG-13 treated samples. Assembly: GRCh38 and GRCm38 Supplementary files format and content: tab-delimited text file for log2-counts per million (log2CPM) , one gene per row and one sample per column. Supplementary files format and content: tab-delimited text file for gene counts , one gene per row and one sample per column.
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Submission date |
Jan 19, 2024 |
Last update date |
May 15, 2024 |
Contact name |
Michael Walsh |
E-mail(s) |
Michaelp.walsh@stjude.org
|
Organization name |
St Jude Children's Research Hospital
|
Street address |
262 Danny Thomas
|
City |
Memphis |
ZIP/Postal code |
38103 |
Country |
USA |
|
|
Platform ID |
GPL24247 |
Series (2) |
GSE253748 |
Functional Characterization of Cooperating MGA Mutations in RUNX1::RUNX1T1 Acute Myeloid Leukemia [RNA-seq] |
GSE253753 |
Functional Characterization of Cooperating MGA Mutations in RUNX1::RUNX1T1 Acute Myeloid Leukemia |
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Relations |
BioSample |
SAMN39511451 |
SRA |
SRX23332026 |