|
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 |