|
| Status |
Public on Apr 24, 2011 |
| Title |
STAT4_ChIPSeq (mouse) |
| Sample type |
SRA |
| |
|
| Source name |
Th1 cell
|
| Organism |
Mus musculus |
| Characteristics |
strain: Balb/C
cell type: Th1 cell
antibody: STAT4
treatment: 2 rounds priming
|
| Treatment protocol |
2 rounds priming (2ug/ml of anti-CD3, 1ug/ml of anti-Cd28,10 ng/ml IL-12 + 10 μg/ml anti-IL-4) was performed
|
| Growth protocol |
naïve CD4+ cells cells were cultured under Th1 condition
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Th1 cells or preactivated cells were cross-linking with formaldehyde. Formaldehyde-treated nuclear lysates were subjected to immunoprecipitation with antibodies specific for STAT1 (Santa Cruz),STAT4 (R&D Systems), STAT5A (R&D Systems), STAT5b (R&D Systems) or normal rabbit serum at 4°C overnight. After deproteination and reversal of cross-links, amounts of selected DNA sequences were assessed by CHIP-Seq
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina Genome Analyzer |
| |
|
| Description |
Chromatin IP against STAT4
|
| Data processing |
Alignment: Sequence reads were obtained and mapped to the human (March, 2006) and the mouse (Febrary, 2006) genomes using the Illumina Genome Analyzer Pipeline. All reads mapping with two or fewer mismatches were retained and read starts were summed in sliding windows of 400 bp to create summary windows.
|
| |
|
| Submission date |
Feb 08, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
Peng Li |
| E-mail(s) |
peng.li@nih.gov
|
| Organization name |
NIH
|
| Department |
NHLBI
|
| Lab |
LMI
|
| Street address |
9000 Rockville Pike
|
| City |
Bethesda |
| State/province |
MD |
| ZIP/Postal code |
20892 |
| Country |
USA |
| |
|
| Platform ID |
GPL9185 |
| Series (1) |
| GSE27158 |
Cytokine receptor modulation by interleukin-2 broadly regulates T helper cell lineage differentiation |
|
| Relations |
| SRA |
SRX041279 |
| BioSample |
SAMN00210543 |
| Named Annotation |
GSM671388_mm8_Th1_STAT4.bed.gz |
