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| Status |
Public on Jan 14, 2022 |
| Title |
WT control 1 |
| Sample type |
SRA |
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| Source name |
c-Kit+ bone marrow cells
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| Organism |
Mus musculus |
| Characteristics |
genotype/variation: WT
cell type: c-Kit+ bone marrow cells
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| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted with AllPrep DNA/RNA/Protein Mini Kit (QIAGEN).
Poly-A selected stranded mRNA libraries were constructed using the Illumina TruSeq Stranded mRNA Sample Prep Kits and sequenced with a HiSeq2500 sequencer.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
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| Description |
ZTcon_1
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| Data processing |
Low quality reads were discarded if their N-bases ratio above 10% or low-quality bases (<=5) ratio above 50%, adapter sequences contained reads were also discarded.
Data of each sample were then aligned to the mm10 reference genome with hisat2.
HTseq-count (0.9.1) (Anders et al., 2015) were used to calculate the read count of each gene, based on the gene model from Ensembl database (GRCm38.95).
Genome_build: mm10 (GRCm38)
Supplementary_files_format_and_content: *.count.txt: Gene expression count matrix.
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| Submission date |
Sep 16, 2020 |
| Last update date |
Jan 15, 2022 |
| Contact name |
Kai Yu |
| E-mail(s) |
kai.yu@nih.gov
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| Organization name |
NHGRI
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| Street address |
50 South Drive, Bldg 50, Room 5151
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| City |
Bethesda |
| State/province |
Maryland |
| ZIP/Postal code |
20892 |
| Country |
USA |
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| Platform ID |
GPL17021 |
| Series (2) |
| GSE158100 |
Redundant mechanisms driven independently by RUNX1 and GATA2 for hematopoietic development |
| GSE158101 |
Redundant mechanisms driven independently by RUNX1 and GATA2 for hematopoietic development |
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| Relations |
| BioSample |
SAMN16191113 |
| SRA |
SRX9139732 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM4792217_ZTcon_1.count.txt.gz |
165.2 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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