|
| Status |
Public on May 16, 2016 |
| Title |
H3K27ac_siKDM1A |
| Sample type |
SRA |
| |
|
| Source name |
prostate cancer
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: LNCaP-abl
transfection: siKDM1A
antibody: H3K27ac
|
| Treatment protocol |
Cells were transfected with 20nM siRNA oligos by RNAiMax reagent (Invitrogen) in 12 well plates according to manufacturer’s instructions.
|
| Growth protocol |
LNCaP-abl cells were maintained in phenol red-free RPMI 1640 medium with 10% charcoal/dextran-treated FBS
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Lysates were clarified from sonicated nuclei and protein-DNA complexes were isolated with antibody.
Library construction was performed using the ChIP-seq DNA sample Prep Kit (Illumina) according to the manufacture’s instruction.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
H3K27ac ChIP
|
| Data processing |
ChIP-seq reads were aligned to the hg38 genome assembly using BWA with default parameters
Bigwig traces were generated using MACS2 with default parameters
Genome_build: hg38
Supplementary_files_format_and_content: BigWig files containing genomic wiggle traces
|
| |
|
| Submission date |
Aug 27, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Chongzhi Zang |
| Organization name |
University of Virginia
|
| Street address |
P. O. Box 800717
|
| City |
Charlottesville |
| State/province |
VA |
| ZIP/Postal code |
22908 |
| Country |
USA |
| |
|
| Platform ID |
GPL11154 |
| Series (1) |
| GSE72467 |
Modeling transcriptional cis-regulation with a library of genome-wide histone H3K27ac profiles |
|
| Relations |
| BioSample |
SAMN04014755 |
| SRA |
SRX1166389 |
