|
| Status |
Public on Oct 05, 2018 |
| Title |
LNCaP AR shTRIM24 regular medium |
| Sample type |
SRA |
| |
|
| Source name |
Prostate cancer cell line
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: LNCaP
genotype: WT
antibody: AR
vendor: Santa Cruz
catalog number: sc-816x
lot/batch number: J216
|
| Treatment protocol |
LNCaP cells were infected with shTRIM24 lentivirus for 4 days before fixation by 1% formaldehyde.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Chromatin in nuclear fraction were sheared to 200-500bp using anCovaris M220 Focused-ultrasonicator, Lysates were clarified from sonicated nuclei and protein-DNA complexes were immunoprecipitated using the indicated antisera. DNA was then uncrosslinked from protein, purified and sequenced using Illumina Genome Analyzers followig protocols recommended by the manufacturer. Libraries were prepared according to Illumina's instructions.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiScanSQ |
| |
|
| Description |
LNCaP AR shTRIM24 RM
|
| Data processing |
Reads were aligned to the hg19 reference human genome using bwa v0.6.1
Peak-calling by HOMER v4.1
Genome_build: hg19
Genome_build: hg19
Supplementary_files_format_and_content: bedGraph file and peak txt file
|
| |
|
| Submission date |
Dec 15, 2017 |
| Last update date |
Feb 04, 2020 |
| Contact name |
Jindan Yu |
| E-mail(s) |
jindan.yu@emory.edu
|
| Organization name |
Emory University
|
| Department |
Urology
|
| Lab |
Jindan Yu's lab
|
| Street address |
E330, 1760 Haygood Dr NE
|
| City |
Atlanta |
| State/province |
GA |
| ZIP/Postal code |
30322 |
| Country |
USA |
| |
|
| Platform ID |
GPL15456 |
| Series (2) |
| GSE108144 |
TRIM28 protects TRIM24 from SPOP-mediated degradation and promotes prostate cancer progression [ChIP-seq] |
| GSE108146 |
TRIM28 protects TRIM24 from SPOP-mediated degradation and promotes prostate cancer progression |
|
| Relations |
| BioSample |
SAMN08182177 |
| SRA |
SRX3474301 |
