|
| Status |
Public on Sep 08, 2015 |
| Title |
JQ1_H3K36me3 |
| Sample type |
SRA |
| |
|
| Source name |
Cell line
|
| Organism |
Mus musculus |
| Characteristics |
treatment: 3d JQ1 25 nM
diagnosis: Leukemia
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody.
ChIP-seq libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
Sample 23
processed_data file: mouse_JQ1_H3K36me3.bw
|
| Data processing |
Adaptors of the single-read fragments were removed using cutadapt v1.4.25 and reads with a length of less than 18bp in any read of the pair were discarded.
The remaining reads were aligned to the genome (mouse: mm10) using Bowtie v1.0.0.
Reads with same start and end position on the same strand were removed from the alignment.
Remaining reads were normalized to total mapped reads.
genome build: mm10
processed data files format and content: bigWig files were generated for each individual IP.
|
| |
|
| Submission date |
Dec 02, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Philipp Rathert |
| E-mail(s) |
philipp.rathert@ibtb.uni-stuttgart.de
|
| Organization name |
University Stuttgart
|
| Department |
Biochemistry
|
| Street address |
Allmandring 31
|
| City |
Stuttgart |
| State/province |
Germany |
| ZIP/Postal code |
70569 |
| Country |
Germany |
| |
|
| Platform ID |
GPL13112 |
| Series (1) |
| GSE63782 |
Transcriptional plasticity promotes primary and acquired resistance to BET bromodomain inhibition |
|
| Relations |
| BioSample |
SAMN03248157 |
| SRA |
SRX793195 |
