|
| Status |
Public on Apr 01, 2024 |
| Title |
LNCaP_e3_2_H3K27ac_ChIP |
| Sample type |
SRA |
| |
|
| Source name |
LNCaP-clone FGC
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: LNCaP-clone FGC
cell type: Prostate adenocarcinoma cell line
chip antibody: H3K27ac (Abcam ab4729)
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Chromatin immunoprecipitation using antibodies to enrich DNA fragments
NEBNext DNA Ultra II library prep kit (E7645S)
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina MiSeq |
| |
|
| Data processing |
Bowtie2 to align sequencing reads
MACS2 to identify ChIP-seq peaks and calculate Signal Per Million Reads (SPMR)
Assembly: hg19
Supplementary files format and content: bigWig (bw)
|
| |
|
| Submission date |
Mar 24, 2023 |
| Last update date |
Apr 01, 2024 |
| Contact name |
Xiaoyang Zhang |
| E-mail(s) |
xiaoyang.zhang@hci.utah.edu
|
| Organization name |
University of Utah
|
| Department |
Oncological Sciences
|
| Lab |
Zhang
|
| Street address |
1950 Circle of Hope Drive
|
| City |
Salt Lake City |
| State/province |
Utah |
| ZIP/Postal code |
84112 |
| Country |
USA |
| |
|
| Platform ID |
GPL15520 |
| Series (2) |
| GSE228166 |
3D genomics analysis identifies enhancer hijacking caused by structural alterations and extrachromosomal circular DNA formation [ChIP-Seq] |
| GSE228247 |
3D genomic analysis reveals novel enhancer-hijacking caused by complex structural alterations that drive oncogene overexpression |
|
| Relations |
| BioSample |
SAMN33905404 |
| SRA |
SRX19766537 |
