|
| Status |
Public on Sep 15, 2022 |
| Title |
LiverC_Cattle [WGBS] |
| Sample type |
SRA |
| |
|
| Source name |
liver
|
| Organism |
Bos taurus |
| Characteristics |
tissue: liver
developmental stage: adult
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA was extracted according to the TIANamp Genomic DNA Kit protocol
DNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
Bisulfite-Seq |
| Library source |
genomic |
| Library selection |
RANDOM |
| Instrument model |
HiSeq X Ten |
| |
|
| Data processing |
FastQC v 0.11.2 and Trim Galore v 0.4.0 was used to assess the quality of the sequence data and filter low-quality reads (q < 30), respectively. The cleaned data were then mapped to the sscrofa11.1 genomes using bowtie2 under the Bismark software (0.14.5) with default parameters
Duplicated reads were removed using deduplicate_bismark
symmetric-cpgs was employed to obtain methyl CpG site information using methpipe software
Assembly: ARS-UCD1.2, Oar_rambouillet_v1.0, ARS1
Supplementary files format and content: CpG report files
|
| |
|
| Submission date |
Jun 20, 2022 |
| Last update date |
Sep 15, 2022 |
| Contact name |
Siqian Chen |
| E-mail(s) |
siqianchen1994@gmail.com
|
| Phone |
15652765993
|
| Organization name |
China Agricultural University
|
| Department |
College of Animal Science and Technology
|
| Lab |
National Engineering Laboratory for Animal Breeding
|
| Street address |
2rd, Yuanmingyuan West Road
|
| City |
Beijing |
| ZIP/Postal code |
100193 |
| Country |
China |
| |
|
| Platform ID |
GPL24230 |
| Series (1) |
| GSE206511 |
Comparative analyses of DNA methylomes in the liver among three ruminants |
|
| Relations |
| BioSample |
SAMN29212784 |
| SRA |
SRX15804003 |
