|
| Status |
Public on May 10, 2021 |
| Title |
WGBS-regulatory T cells- Foxp3 enhancer CNS0 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 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 |
SAMN16212645 |
| SRA |
SRX9152022 |
