|
Status |
Public on May 01, 2024 |
Title |
NCIH929 24 hours DMSO 2 |
Sample type |
SRA |
|
|
Source name |
cell line
|
Organism |
Homo sapiens |
Characteristics |
tissue: cell line cell line: NCIH929 cell type: human multiple myeloma time: 24 hr treatment: DMSO
|
Treatment protocol |
The myeloma cell lines NCIH929 and SKMM1 were grown at 0.5 x 10^6 cells/ml and either treated with DMSO or 1000 nM AU15330 for 6 or 24 hours. 1 x 10^6 cells were collected for each sample.
|
Growth protocol |
NCIH929 and SKMM1 cells were grown in advanced RPMI supplemented with 4% FBS with pen/strep and glutamine.
|
Extracted molecule |
total RNA |
Extraction protocol |
RNA was extracted using the Qiagen AllPrep Kit. RNA libraries were prepared for sequencing using standard Illumina protocols
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2000 |
|
|
Description |
CTRL
|
Data processing |
Illumina Casava1.7 software used for basecalling. Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to hg19 human genome using STAR2 Raw read counts per gene were called with Htseq-Count normalized by DEseq2 Assembly: hg19 Supplementary files format and content: Tab-delimited text files of normalized gene expression
|
|
|
Submission date |
Jan 19, 2024 |
Last update date |
May 01, 2024 |
Contact name |
David Huang |
Organization name |
National Cancer Institute
|
Street address |
9000 Rockville Pike
|
City |
Bethesda |
State/province |
Maryland |
ZIP/Postal code |
20892-0001 |
Country |
USA |
|
|
Platform ID |
GPL11154 |
Series (2) |
GSE253713 |
IRF4 requires ARID1A to establish plasma cell identity in multiple myeloma (RNA-Seq human 16). |
GSE253716 |
IRF4 requires ARID1A to establish plasma cell identity in multiple myeloma |
|
Relations |
BioSample |
SAMN39510017 |
SRA |
SRX23330816 |