|
| Status |
Public on Apr 07, 2021 |
| Title |
14269-HTB20-006 VEN 10nM 24H rep1 |
| Sample type |
SRA |
| |
|
| Source name |
human primary leukemia cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: myeloblasts
treatment: 10nM Ven 24H
|
| Treatment protocol |
In a 6 Well plate, place 1 million cells and treatment in 4mL of culture media and incubate for 4, 12, or 24H. Than harvest for RNA extraction.
|
| Growth protocol |
American Type Culture Collection (ATCC) and maintained in DMEM (Dulbecco Modified Eagle Medium) supplemented with 10% FBS and 100 units of penicillin/streptomycin at 37C with 5% CO2.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from cultured cells using the RNeasy Mini kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Illumina bcl2fastq v2.18.0.12 software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to hg19 whole genome using STAR 2.6.0.a with default parameters
The HTSeq software (v.0.6.0) was applied to generate the count matrix, with default parameters. Reads Per Kilobase of exon per Megabase of library size (RPKM) were calculated using EdgeR 3.28.1.
Genome_build: hg19
Supplementary_files_format_and_content: Matrix table with raw gene counts for every gene and every sample
|
| |
|
| Submission date |
Apr 06, 2021 |
| Last update date |
Apr 07, 2021 |
| Contact name |
Bin Zhang |
| Organization name |
City of Hope
|
| Department |
Hem Malignancies Trans Sci
|
| Street address |
1500 E. Duarte Road
|
| City |
Duarte |
| State/province |
CA |
| ZIP/Postal code |
91010 |
| Country |
USA |
| |
|
| Platform ID |
GPL16791 |
| Series (1) |
| GSE171552 |
Targeting the metabolic vulnerability of acute myeloid leukemia blasts with a combination of venetoclax and 8-chloro-adenosine |
|
| Relations |
| BioSample |
SAMN18631354 |
| SRA |
SRX10519904 |
