|
| Status |
Public on Dec 31, 2019 |
| Title |
p300_ICBP112_1_ChIPSeq |
| Sample type |
SRA |
| |
|
| Source name |
Androgen dependent prostate cancer cell line
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: LNCaP-FGC
cell type: Androgen dependent prostate cancer cell line
treatment: ICBP112
chip antibody: p300 (Developmental Studies Hybridoma Bank, University of Iowa, ENCITp300-1)
|
| Treatment protocol |
LNCaP cells were divided into 4 different drug treatment groups (including control) and were treated with I-CBP112 and/or A-485 for 24 h.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Chromatin shearing followed by p300 immunoprecipitation.
Swift Biosciences Accel-NGS 2S
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
ChiLin pipeline.
QC with FastQC.
Align with Bowtie.
Peak calling by MACS2.
Pearson correlation with wigCorrelate; %overlap between replicates determined.
Peaks annotated with HOMER after removal of blacklisted regions.
Genome_build: hg19 (GRCh37)
Supplementary_files_format_and_content: bigWig
|
| |
|
| Submission date |
Jan 03, 2019 |
| Last update date |
Jan 01, 2020 |
| Contact name |
Beth Zucconi |
| E-mail(s) |
bethzucconi@gmail.com
|
| Organization name |
Brigham & Women's Hospital
|
| Department |
Medicine
|
| Lab |
P.A. Cole
|
| Street address |
77 Avenue Louis Pasteur, NRB 164
|
| City |
Boston |
| State/province |
Massachusetts |
| ZIP/Postal code |
02115 |
| Country |
USA |
| |
|
| Platform ID |
GPL18573 |
| Series (2) |
| GSE124642 |
Combination Targeting of the Bromodomain and Acetyltransferase Active Site of p300/CBP [ChIP-seq] |
| GSE124644 |
Combination Targeting of the Bromodomain and Acetyltransferase Active Site of p300/CBP |
|
| Relations |
| BioSample |
SAMN10690550 |
| SRA |
SRX5199670 |
