|
| Status |
Public on Sep 18, 2017 |
| Title |
MOLT4_CDK9_dBET6 |
| Sample type |
SRA |
| |
|
| Source name |
T-ALL
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: MOLT4
antibody: CDK9
antibody manufacturer: Santa Cruz
antibody catalog number: C-20
drug treatment: dBET6
|
| Growth protocol |
cells were cultured in RPMI-10%FCS
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Standard DNA extraction from MOLT4 cell lines using cell lysis.
Probe sonicator 3 minutes total sonication time (1 sec on, 4 sec off, 60% amplitude) on ice library prep with Rubicon TruePlex kit.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
For all samples, reads were aligned to their indicated build using bowtie2 with parameters -k 1.
MACS1.4 with p-value = 1e-9 and default parameters was used to call peaks and generate wiggles.
Genome_build: hg19
Supplementary_files_format_and_content: WIG files: For all samples, aligned sequences were extended 150bp upstream and 0bp downstream (with respect to read strand) and allocated into 25bp bins. Counts were normalized to reads per million, and bins with at least 1 read per million are shown.
|
| |
|
| Submission date |
Mar 16, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
James Bradner |
| E-mail(s) |
bradner_computation@dfci.harvard.edu
|
| Organization name |
Dana-Farber Cancer Institute
|
| Department |
Medical Oncology
|
| Lab |
Bradner Lab
|
| Street address |
450 Brookline
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02215 |
| Country |
USA |
| |
|
| Platform ID |
GPL18573 |
| Series (2) |
| GSE79288 |
BET bromodomain proteins function as master transcription elongation factors independent of CDK9 recruitment [ChIP-seq] |
| GSE79290 |
BET bromodomain proteins function as master transcription elongation factors independent of CDK9 recruitment |
|
| Relations |
| BioSample |
SAMN04558320 |
| SRA |
SRX1637470 |
