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| Status |
Public on Oct 01, 2018 |
| Title |
MPP [KY027] |
| Sample type |
SRA |
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| Source name |
multipotent progenitor
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| Organism |
Homo sapiens |
| Characteristics |
cell type: cord blood
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| Extracted molecule |
total RNA |
| Extraction protocol |
2,000-30,000 progenitor cells of each population were purified using flowcytometry sorting. After cell lysis, mRNA was purified using LNA-Oligo-(dT) coated streptavidin-coated C1 DynabeadsRNA was extracted
RNA was amplified with clonetech SMARTer Ultra Low RNA Kit (634935 and 639207, Clontech)
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
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| Data processing |
RNA-Seq reads were aligned to the Ensembl GRCh 37 genome assembly using STAR with default parameters
featureCounts was used to obtain gene read counts.
DESeq2 was used to normalize the read counts for library size difference correction.
Genome_build: Ensembl GRCh37
Supplementary_files_format_and_content: tab-delimited text files include read counts for each sample
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| Submission date |
Oct 21, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Kang Liu |
| Phone |
212-305-0839
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| Organization name |
Columbia University
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| Department |
Dept of Microbiology & Immunology
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| Lab |
Liu Lab
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| Street address |
701 W. 168 St., HHSC 1208
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| City |
New York City |
| State/province |
New York |
| ZIP/Postal code |
10032 |
| Country |
USA |
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| Platform ID |
GPL18573 |
| Series (1) |
| GSE89020 |
Parallel transcriptional programs driving early-starting inheritable lineage bias of myeloid, lymphoid and dendritic cells are initiated by distinct dosage of PU.1 and IRF8 in HSCs |
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| Relations |
| BioSample |
SAMN05933161 |
| SRA |
SRX2255967 |
| Supplementary data files not provided |
SRA Run Selector |
| Processed data are available on Series record |
| Raw data are available in SRA |
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