|
| Status |
Public on Jan 22, 2025 |
| Title |
arsenic 3 -2nd exp |
| Sample type |
SRA |
| |
|
| Source name |
embryos
|
| Organism |
Mus musculus |
| Characteristics |
tissue: embryos
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA was prepared from the homogenate of each embryo using an AllPrep DNA Mini spin column (Qiagen) according to the manufacturer’s protocol.
RRBS libraries were prepared using NEBNext Ultra II DNA Library Prep Kit for Illumina following manufacturer's protocols.
|
| |
|
| Library strategy |
Bisulfite-Seq |
| Library source |
genomic |
| Library selection |
Reduced Representation |
| Instrument model |
HiSeq X Ten |
| |
|
| Data processing |
Sequence reads were trimmed for adaptor sequence/low-quality sequence using Trim Galore
Adapter-and quality-trimmed sequencing reads were mapped to the mouse reference genomes (mm10) using the Bismark
The methylation level of each CpG was calculated using a methylKit package
Assembly: mm10
Supplementary files format and content: txt
|
| |
|
| Submission date |
Aug 22, 2024 |
| Last update date |
Jan 22, 2025 |
| Contact name |
Keiko Nohara |
| E-mail(s) |
keikon@nies.go.jp
|
| Organization name |
National Institute for Environmental Studies
|
| Street address |
16-2 Onogawa
|
| City |
Tsukuba |
| ZIP/Postal code |
3058506 |
| Country |
Japan |
| |
|
| Platform ID |
GPL21273 |
| Series (1) |
| GSE275460 |
DNA methylation profiles of mice embryos (E7.5) of the control group and arsenic group_2nd experiment |
|
| Relations |
| BioSample |
SAMN43299321 |
| SRA |
SRX25798946 |
