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Sample GSM1242999 Query DataSets for GSM1242999
Status Public on Dec 31, 2013
Title PARP-14 -/- (KO)
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 SAMN02376746
SRA SRX364620

Supplementary file Size Download File type/resource
GSM1242999_7_Tcell_P14KO_L003s5_uniqnorm_signal.bar.gz 57.4 Mb (ftp)(http) BAR
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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