|
| Status |
Public on Sep 24, 2020 |
| Title |
Pten KO 8w Rep 1 RRBS |
| Sample type |
SRA |
| |
|
| Source name |
Thymus
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Thymus
time point: 8 weeks
genotype: Lck-Cretg/+ Ptenfl/fl
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA was isolated from full thymus using the QiaAMP DNA Mini kit (Qiagen).
RRBS was done using MSPI digest.
|
| |
|
| Library strategy |
Bisulfite-Seq |
| Library source |
genomic |
| Library selection |
Reduced Representation |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Reads were trimmed using TrimGalore (v0.4.5) with –rrbs and –non-directional and aligned with Bismark (v0.20.0) on GRCm38.
RRBS data was analyzed using RnBeads.mm10 in R (versions >3.4). β values were obtained after filtering and normalization using the default preprocessing pipeline.
Genome_build: GRCm38
|
| |
|
| Submission date |
Jul 29, 2020 |
| Last update date |
Sep 24, 2020 |
| Contact name |
Juliette Roels |
| E-mail(s) |
roels.juliette@gene.com
|
| Phone |
6505807476
|
| Organization name |
Genentech
|
| Street address |
1 DNA Way
|
| City |
South San Francisco |
| State/province |
CA |
| ZIP/Postal code |
94080 |
| Country |
USA |
| |
|
| Platform ID |
GPL19057 |
| Series (2) |
| GSE155338 |
Aging of preleukemic thymocytes drives CpG island hypermethylation in T-cell acute lymphoblastic leukemia [RRBS_mouseTALL] |
| GSE155339 |
Aging of preleukemic thymocytes drives CpG island hypermethylation in T-cell acute lymphoblastic leukemia |
|
| Relations |
| BioSample |
SAMN15666566 |
| SRA |
SRX8843214 |
