|
| Status |
Public on Feb 24, 2023 |
| Title |
mBD2(SKY)-PBRM1- Replicate 1 |
| Sample type |
SRA |
| |
|
| Source name |
Renal cancer cell line
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: Caki2
genotype: Caki2 with mBD2(SKY)-PBRM1
antibody: V5 antibody (CST, #13202)
|
| Treatment protocol |
Caki2 cell line transduced with lentiviral particles for either empty vector, V5-tagged wtPBRM1 or mBD2(SKY)-PBRM1 were treated with doxycycline for 6 days for inducing protein expression
|
| Growth protocol |
Caki2 renal cancer cell lines were grown under normal conditions: McCoy's 5A with 10% FBS
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells were UV crosslinked and processed as described in the ECLIPSEBIO RBP-eCLIP kit
Libraries were constructed according to the instructions in ECLIPSEBIO RBP-eCLIP kit
CLIP-seq
|
| |
|
| Library strategy |
OTHER |
| Library source |
transcriptomic |
| Library selection |
other |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Data was processed and analyzed by ECLIPSEBIO
Assembly: hg19
Supplementary files format and content: BigWig files are in an indexed binary format and contain genome-wide coverage information for positive and negative strand
|
| |
|
| Submission date |
Dec 22, 2022 |
| Last update date |
Feb 24, 2023 |
| Contact name |
Emily C. Dykhuizen |
| E-mail(s) |
edykhui@purdue.edu
|
| Organization name |
Purdue University
|
| Department |
Medicinal Chemistry and Molecular Pharmacology
|
| Street address |
201 S. University St.
|
| City |
West Lafayette |
| State/province |
IN |
| ZIP/Postal code |
47907 |
| Country |
USA |
| |
|
| Platform ID |
GPL24676 |
| Series (2) |
| GSE221619 |
PBRM1 bromodomains associate with RNA to facilitate chromatin association (CLIP-seq) |
| GSE221620 |
PBRM1 bromodomains associate with RNA to facilitate chromatin association |
|
| Relations |
| BioSample |
SAMN32374318 |
| SRA |
SRX18827906 |
