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Sample GSM4795518 Query DataSets for GSM4795518
Status Public on May 10, 2021
Title WGBS-regulatory T cells- Foxp3 enhancer CNS0 and CNS2 double knockout-replicate 1
Sample type SRA
 
Source name Regulatory T cells were sorted by GFP expression from mixed bone marrow chimeric mice generated with bone marrows from male donors of CD45.1 wild-type mice and CD45.2 mice of indicated genotypes
Organism Mus musculus
Characteristics strain: C57BL/6
cell type: FACS sorted regulatory T cells (CD4+GFP+)
genotype: Foxp3 enhancer CNS0 and CNS2 double knockout
Extracted molecule genomic DNA
Extraction protocol Genetic DNA was extracted by proteinase K digestion followed by phenol-chloroform extraction and isopropanol precipitation.
Standard protocols for genome-wide bisulfite sequencing.
 
Library strategy Bisulfite-Seq
Library source genomic
Library selection RANDOM
Instrument model Illumina NovaSeq 6000
 
Description Genome-wide bisulfite sequencing (WGBS)
Data processing Whole-genome bisulfite sequencing (WGBS) data were aligned to mouse genome mm9 assembly by using BSMAP2.74.
The methylation ratio for each CpG site was extracted by methratio.py from BSMAP2.74. The methylation ratio was then converted to bw file for visualization. Regions covered by < 5 reads were marked as -0.2.
Genome_build: mm9(MGSCv37 )
Supplementary_files_format_and_content: bigwig
 
Submission date Sep 18, 2020
Last update date May 10, 2021
Contact name Beisi Xu
E-mail(s) beisi.xu@stjude.org
Organization name St Jude Children's Research Hosipital
Department Center for Applied Bioinformatics
Street address 262 Danny Thomas Pl
City Memphis
State/province Tennessee
ZIP/Postal code 38105
Country USA
 
Platform ID GPL24247
Series (2)
GSE158222 Foxp3 enhancers synergize to maximize regulatory T cell suppressive capacity [Bisulfite-Seq]
GSE158223 Foxp3 enhancers synergize to maximize regulatory T cell suppressive capacity
Relations
BioSample SAMN16212642
SRA SRX9152024

Supplementary file Size Download File type/resource
GSM4795518_2-1091933_1840530_CNS02DKOa_1.bw 208.0 Mb (ftp)(http) BW
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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