|
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 |