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Sample GSM999181 Query DataSets for GSM999181
Status Public on Sep 28, 2012
Title Treg Input Rep1
Sample type SRA
Source name Treg Input
Organism Mus musculus
Characteristics cell type: Foxp3-positive CD4+ T cells
cell source: Primary Mouse T cells isolated ex-vivo and sorted
Treatment protocol None
Extracted molecule genomic DNA
Extraction protocol Cells were harvested from mice that were approximately 8 weeks old. Lymphnodes and spleen were extracted and sorted based on GFP (Foxp3). Cells were fixed with formaldehyde, nuclei were extracted and sonicated. Antibodies were incubated with sonicated chromatin. Standard illumina kit was used for library construction.
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina Genome Analyzer II
Description Input Control Rep1
Data processing Base calling was performed using Illumina software pipeline (Genome Analyzer)
Align to the mouse genome (mm9) using bowtie (version 0.12.7) allowing 1 mismatch and reporting only uniquely aligning hits.
Peak calling was perfomed using SPP and MACS. Number of peaks was estimated as described in our manuscript.
Genome_build: mm9
Submission date Sep 07, 2012
Last update date May 15, 2019
Contact name Aaron Arvey
Organization name Memorial Sloan-Kettering Cancer Center
Street address 415 E 68th St ZRC 1441
City New York
State/province NY
ZIP/Postal code 10065
Country USA
Platform ID GPL9250
Series (2)
GSE40684 Foxp3 exploits a preexistent enhancer landscape for regulatory T cell lineage specification [ChIP-Seq]
GSE40686 Foxp3 exploits a preexistent enhancer landscape for regulatory T cell lineage specification
SRA SRX184862
BioSample SAMN01163369

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data not provided for this record

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