|
| Status |
Public on Dec 31, 2013 |
| Title |
PARP-14 +/+ (WT) + Pj34 |
| Sample type |
SRA |
| |
|
| Source name |
Naïve CD4+ T cells
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL6
tissue: Spleen
genotype: PARP-14 +/+
|
| Treatment protocol |
Th2 differentiated cells were treated with 10uM PJ34 (Sigma).
|
| Growth protocol |
Naive CD4+CD62L+ T cells were purified from spleens by magnetic selection (Miltenyi Biotec). Naive CD4+ T cells were activated with plate-bound anti-CD3 (2 mg/ml;BD Pharmingen) and soluble anti-CD28 (1 mg/ml; BD Pharmingen) and cultured under Th2 conditions (IL-4 [10 ng/ ml; PeproTech] and anti–IFN-g [10 ng/ ml; XMG;BD BIosciences]). After 3 d, cultures were expanded with fresh complete RPMI 1640 medium containing IL-2 (50U/mL: PeproTech)and IL-4 (10 ng/mL) for 4 days.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Cells were fixed and sonicated according to active motif protocol
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina Genome Analyzer II |
| |
|
| Data processing |
36-nt sequence reads ID'd using Illumina's Genome Analyzer 2, mapped to genome using ELAND.
Peak-calling performed using SICER.
Tag Normalization by truncating tag number of all samples to number of tags present in smallest sample
False peak filtering performed by comparing intervals present in Input of IgG control samples to Intervals in ChIP samples.
Genome_build: mm9
|
| |
|
| Submission date |
Oct 17, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Purvi Mehrotra |
| E-mail(s) |
pmehrotr@iupui.edu
|
| Organization name |
Indiana School of medicine
|
| Department |
Pediatric Pulmomology
|
| Street address |
1044 West Walnut Street, R4-279
|
| City |
Indianapolis |
| State/province |
IN |
| ZIP/Postal code |
46202 |
| Country |
USA |
| |
|
| Platform ID |
GPL9250 |
| Series (1) |
| GSE51344 |
Study the effect of PARP-14 and its activity on Th2 differentiation |
|
| Relations |
| BioSample |
SAMN02376747 |
| SRA |
SRX364619 |
