|
| Status |
Public on Jun 04, 2024 |
| Title |
10_WT-CD4-2_S203_R1 |
| Sample type |
SRA |
| |
|
| Source name |
spleen
|
| Organism |
Mus musculus |
| Characteristics |
tissue: spleen
cell line: CD4+ cells
cell type: CD4+ cells
genotype: Dnmt3a+/+
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
High-Molecular-Weight (HMW) DNA of cells were isolated using MagAttract HMW DNA Kit according to the manufacturer’s instructions (Qiagen)
WGBS was performed using the Zymo-Seq WGBS Library Kit (Zymo research) according to the manufacturer’s recommendations at the High Throughput Sequencing Core of Children’s Hospital of Philadelphia, PA, USA
|
| |
|
| Library strategy |
Bisulfite-Seq |
| Library source |
genomic |
| Library selection |
RANDOM |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
quality of the data checked using FastQC
alignment using Biscuit
DMR analysis by metilene
Assembly: mm10
Supplementary files format and content: html file for FastQC
Supplementary files format and content: gzip file for metilene
Supplementary files format and content: flagstat file for Biscuit
|
| |
|
| Submission date |
Feb 16, 2024 |
| Last update date |
Jun 04, 2024 |
| Contact name |
Hui WANG |
| E-mail(s) |
[email protected]
|
| Phone |
2674038205
|
| Organization name |
University of Pennsylvania
|
| Street address |
240 South 40th Street
|
| City |
Philadelphia |
| State/province |
Pennsylvania |
| ZIP/Postal code |
19104-6030 |
| Country |
USA |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE255947 |
Methylation status of CD4+ and CD11b+ cells from Dnmt3a+/+ or Dnmt3aR878/+ mice |
|
| Relations |
| BioSample |
SAMN39964267 |
| SRA |
SRX23642429 |
