 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Nov 08, 2016 |
| Title |
MB231shKAP1_wt |
| Sample type |
SRA |
| |
|
| Source name |
MDA-MB-231 cell
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: MDA-MB-231
variation: wild type
|
| Growth protocol |
Cultured in DMEM supplemented with 10% FBS in 37°C, 5% CO2
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from cells using the TRIzol reagent
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Illumina Casava1.8 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 bowtie
Reads Per Kilobase of exon per Megabase of library size (RPKM) were calculated using software Partek
Genome_build: hg19
Supplementary_files_format_and_content: one tab-delimited text file including log2(RPKM) values for each Sample ...
|
| |
|
| Submission date |
Nov 17, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
David Kong Ann |
| E-mail(s) |
dann@coh.org
|
| Organization name |
City of Hope
|
| Street address |
1500 E. Duarte Rd.
|
| City |
Duarte |
| State/province |
CA |
| ZIP/Postal code |
91010 |
| Country |
USA |
| |
|
| Platform ID |
GPL16791 |
| Series (1) |
| GSE63344 |
Gene expression profile of wt-, S473A- and S473D-KAP1-re-expression in KAP1-depleted MDA-MB-231 cell |
|
| Relations |
| BioSample |
SAMN03196936 |
| SRA |
SRX761001 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
|
|
|
|
 |
