|
| Status |
Public on Apr 26, 2021 |
| Title |
LN_shCON_16hr_3 |
| Sample type |
SRA |
| |
|
| Source name |
LN_shCON_16hr
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: LNCaP cell line
knockdown: shCon
treatment: 72 hrs CDT, 16 hrs 10 nM DHT
|
| Treatment protocol |
LNCaP and C4-2 cells (shCon and shRB) were moved to hormone deficient media for 72 hours followed by treatment with 10 nM DHT for 16 hours prior to harvest
|
| Growth protocol |
LNCaP and C4-2 cells (shCon and shRB) were cultured in hormone proficient media
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA seq was performed as previously described (McNair et al 2018)
RNA seq libraries were constructed as previously described (McNair et al 2018)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
LN_shCON_DHT_16hr_3
processed data file: LN_CountTable_16hr_FeatureCounts.txt
|
| Data processing |
Alignment to hg19 with STAR
Generate count table using featureCounts
Differential expression using DESeq2
Genome_build: hg19
Supplementary_files_format_and_content: count matrix
|
| |
|
| Submission date |
Jul 10, 2020 |
| Last update date |
Apr 26, 2021 |
| Contact name |
Christopher McNair |
| E-mail(s) |
[email protected]
|
| Organization name |
Thomas Jefferson University
|
| Department |
Medical Oncology
|
| Street address |
833 Chestnut Street Ste 1140
|
| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19107 |
| Country |
USA |
| |
|
| Platform ID |
GPL18573 |
| Series (2) |
| GSE154190 |
Comparison of the RB loss-induced transcrptiome in hormone-therapy sensitive and castration-resistant prostate cancer [RNA-seq] |
| GSE154192 |
Comparison of the RB loss-induced transcrptiome in hormone-therapy sensitive and castration-resistant prostate cancer |
|
| Relations |
| BioSample |
SAMN15502788 |
| SRA |
SRX8706927 |
