|
| Status |
Public on Aug 26, 2011 |
| Title |
DP-Gata3-KO-H3K27me3 [Methyl-Seq] |
| Sample type |
SRA |
| |
|
| Source name |
Double positive cells
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
genotype/variation: Gata3 knockout
cell type: Double-positive cells
antibody: anti-H3K27me3
|
| Growth protocol |
DP cells are separated from WT and GATA3-knockout mice respectively.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Following standard ChIP-seq protocol. Briefly, T cells were treated with MNase to generate approximately 80% mononucleosomes and 20% dinucleosomes. Chromatin from 1 × 107 cells was used for each ChIP experiment, which yielded approximately 100 ng of DNA. Antibodies against histone H3K4me3 (ab8580, Abcam) and H3K27me3 (07-449, Upstate) were used. After reverse cross-linking and purification with Qiagen PCR purification kit, the ChIP DNA fragments were blunt-ended, ligated to the Solexa adaptors, PCR amplified, and sequenced using the Illumina 1G Genome Analyzer.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina Genome Analyzer II |
| |
|
| Description |
Methyl-Seq
|
| Data processing |
Reads were aligned against genome build mm8 using ELAND
|
| |
|
| Submission date |
Mar 18, 2010 |
| Last update date |
May 15, 2019 |
| Contact name |
Brian J Abraham |
| Organization name |
St. Jude Children's Research Hospital
|
| Department |
Computational Biology
|
| Street address |
262 Danny Thomas Blvd
|
| City |
Memphis |
| State/province |
TN |
| ZIP/Postal code |
38112 |
| Country |
USA |
| |
|
| Platform ID |
GPL9250 |
| Series (1) |
| GSE20898 |
Genome-wide Analyses of Transcription Factor GATA3-Mediated Gene Regulation in Distinct T Cell Types |
|
| Relations |
| SRA |
SRX018112 |
| BioSample |
SAMN00010541 |
