|
| Status |
Public on Sep 01, 2017 |
| Title |
RNASeq_abl_DMSO duplicate 1 |
| Sample type |
SRA |
| |
|
| Source name |
RNASeq_abl_DMSO
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: LNCaP-abl (abl)
cell types: castration resitant prostate cancer cells
cell phenotype: AR-positive, EZH2 inhibitor-sensitive
passages: 61-64
treated with: vehicle (DMSO)
|
| Treatment protocol |
Both types of cells were treated with vehicle (DMSO), GSK126 or EPZ-6438 at final concentrations of 5 uM for 60-72 hrs before the RNA samples were collected.
|
| Growth protocol |
Both DU145 and LNCaP-abl (abl) cells were routinely maintained in phenol-red-free RPMI1640 with 10% charcoal-stripped FBS plus 1% Penicillin-Streptomycin.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using TRIZol Reagent and purified with RNeasy Mini Kit (Qiagen) according to the kit manual.
Libraries were constructed using Illumina True-seq RNA sample preparation kit.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
abl_DMSO_1
|
| Data processing |
Reads were mapped to hg19 assembly using TopHat version 2.0.6.
DESeq2 was used to calculate the fold change and p-value of differntialy expression.
Genome_build: Hg19
Supplementary_files_format_and_content: DESeq2 output with fold change and p-value of differntialy expression
|
| |
|
| Submission date |
Apr 13, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Kexin Xu |
| E-mail(s) |
[email protected]
|
| Organization name |
UT Health Science Center at San Antonio
|
| Department |
Molecular Medicine
|
| Street address |
7703 Floyd Curl, MC 8257
|
| City |
San Antonio |
| State/province |
TX |
| ZIP/Postal code |
78229 |
| Country |
USA |
| |
|
| Platform ID |
GPL18573 |
| Series (2) |
| GSE80239 |
EZH2 inhibitor-mediated transcriptional profiling in prostate cancer cells [RNA-seq] |
| GSE80240 |
Distinct changes in transcriptional profiles and epigenetic patterns mediated by EZH2 inhibitors in sensitive and insensitive prostate cancer cells |
|
| Relations |
| BioSample |
SAMN04849731 |
| SRA |
SRX1702496 |
