|
| Status |
Public on Sep 13, 2011 |
| Title |
H3K79me2_normal_karyotype_huAML_ChIPSeq |
| Sample type |
SRA |
| |
|
| Source name |
human leukemic blasts
|
| Organism |
Homo sapiens |
| Characteristics |
cell origin: diagnostic sample (pre-treatment)
chip antibody: H3K79me2
|
| 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 |
A sample from an adult MLL-AF9 AML patient was provided by the German-Austrian AML study Group (AMLSG) with patient consent according to the Declaration of Helsinki and IRB approval of all participating institutions.
|
| 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 Genome Analyzer IIx |
| |
|
| Description |
Chromatin IP against H3K79me2
|
| 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 |
GPL10999 |
| Series (1) |
| GSE29130 |
Epigenetic profiling of hematopoietic stem cells and leukemia stem cells |
|
| Relations |
| SRA |
SRX099357 |
| BioSample |
SAMN00728491 |
