|
| Status |
Public on Dec 15, 2017 |
| Title |
MIT3 |
| Sample type |
SRA |
| |
|
| Source name |
MIT, CD34+ HSPCs
|
| Organism |
Homo sapiens |
| Characteristics |
donor: 3
genotype/variation: Ctrl
cell type: CD34+ HSPC
cell etiology: UCB
sorted for lineage: GFP+CD11b-
|
| Growth protocol |
culture cells were maintaind in IMDM with 20% BIT and 10ng/mL of SCF, TPO, Flt3 ligand, IL-3 and IL-6
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells were sorted for GFP+CD11b-. Total RNA was isolated from sorted cells using RNeasy Mini Kit (Qiagen).
PrepX mRNA Library kit (WaferGen) was used with 1 ug of total RNA for the construction of sequencing libraries, the libraries were clustered by using IIIumina TruSeq PE Cluster kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 1000 |
| |
|
| Description |
3MIT
|
| Data processing |
bcl files were demultiplexed and converted to fastq files using bcl2fastq in Casava 1.8
fastq seqences were aligned to hg19 using Tophat
number of reads was calculated for each Entrez gene
Genome_build: hg19
Supplementary_files_format_and_content: tab delimited raw counts with genes in rows and samples in columns
|
| |
|
| Submission date |
May 04, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Shan Lin |
| Organization name |
Cincinnati Children's Hospital Medical Center
|
| Department |
EHCB
|
| Lab |
James Mulloy
|
| Street address |
3333 Burnet Avenue, CCHMC
|
| City |
Cincinnati |
| State/province |
OH |
| ZIP/Postal code |
45229 |
| Country |
USA |
| |
|
| Platform ID |
GPL15433 |
| Series (1) |
| GSE81084 |
FOXO1 is an oncogenic mediator in AML1-ETO leukemia |
|
| Relations |
| BioSample |
SAMN04939721 |
| SRA |
SRX1741585 |
