|
| Status |
Public on Aug 18, 2017 |
| Title |
ZR75-ERX-11-1 |
| Sample type |
SRA |
| |
|
| Source name |
ZR75 breast cancer cells
|
| Organism |
Homo sapiens |
| Characteristics |
treatment: ESR1 Coregulator Binding Site Inhibitors
tissue: ZR75
|
| Treatment protocol |
Total RNA was isolated from ZR75 cells that are treated with vehicle or ERX-11 in the presence of E2 and Samples were subjected to RNAseq analysis
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA samples about 1-2 mg were used for sequencing library preparation according to Illumina TruSeq Total RNA Sample Preparation Guide (Illumina Cat. #: RS-122-2201). Each library was bar-coded and then pooled for cluster generation and sequencing run with 100bp single-end (SE) sequencing protocol.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
ZR75 cells treated with ERX+E2
|
| Data processing |
Illumina Casava v1.8.2 software used for base-calling
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to hg19 whole genome using TopHat v2.0.8b
gene count measurements were obtained using HTSeq-count
Genome_build: hg19
Supplementary_files_format_and_content: The processed data files are in tabular format. The first column contains the gene symbols and the second column contain the read counts of the gene using htseq-count
|
| |
|
| Submission date |
Dec 03, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Yidong Chen |
| E-mail(s) |
cheny8@uthscsa.edu
|
| Phone |
2105629163
|
| Organization name |
UT Health Science Center at San Antonio
|
| Department |
Population Health Sciences
|
| Street address |
8403 Floyd Curl Drive, MSC 7784
|
| City |
San Antonio |
| State/province |
Texas |
| ZIP/Postal code |
78229 |
| Country |
USA |
| |
|
| Platform ID |
GPL11154 |
| Series (1) |
| GSE75664 |
Estrogen receptor coregulator binding modulators (ERXs) effectively target estrogen receptor positive human breast cancers |
|
| Relations |
| BioSample |
SAMN04315697 |
| SRA |
SRX1462167 |
