|
| Status |
Public on Sep 13, 2011 |
| Title |
H3K36me3_mGMP_ChIPSeq |
| Sample type |
SRA |
| |
|
| Source name |
murine GMP
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
genotype: wild type
age: 6-8 weeks
cell origin: murine GMP cells (IL-7R-Lin-Sca-1-c-Kit+CD34+FcgammaII/IIIhi)
chip antibody: H3K36me3
|
| Treatment protocol |
Cells were subjected to ChIP-Seq using an antibody specific for H3K4me3, H3K27me3, H3K36me3, H3K79me2 or streptavidin beads (for biotinylated MLL-AF9 targets).
|
| Growth protocol |
GMP cells were isolated by flow cytometry from bone marrow of wild type C57BL/6 (6-8 wks).
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
ChIP DNA libraries were made following the Illumina ChIP-seq library preparation kit.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
Chromatin IP against H3K36me3
|
| Data processing |
Sequence reads were aligned to the mouse genome assembly mm8 or human genome assembly hg18 using Bowtie. ChIP-Seq signal was quantified as total number of reads per million in the region of interest. An empirical background distribution model of reads was constructed to find the significance level of signal in a given region.
|
| |
|
| Submission date |
May 06, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
Amit Sinha |
| E-mail(s) |
amit.sinha@childrens.harvard.edu
|
| Phone |
617-582-7579
|
| Organization name |
Dana-Farber Cancer Institute
|
| Department |
Pediatric Oncology
|
| Lab |
Armstrong Lab
|
| Street address |
44 Binney St
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02135 |
| Country |
USA |
| |
|
| Platform ID |
GPL13112 |
| Series (1) |
| GSE29130 |
Epigenetic profiling of hematopoietic stem cells and leukemia stem cells |
|
| Relations |
| SRA |
SRX061981 |
| BioSample |
SAMN00264821 |
