|
| Status |
Public on Jun 13, 2016 |
| Title |
Genome-wide DNA methylation profiling of mouse liver |
| Organism |
Mus musculus |
| Experiment type |
Methylation profiling by high throughput sequencing
|
| Summary |
To determine whether differences between background strains or housing conditions altered the hepatic methylome, We report the generation and analysis of genome-wide DNA methylation profiles at nucleotide resolution in mouse liver from two male mice on a mixed background (mixed-1, mixed-2) and two males on a pure Black-6 (B6-1, B62) background. Using Enhanced high-throughput Reduced Representation Bisulfite Sequencing (ERRBS), we enriched CpG islands in mouse liver, and covered a representative sampling of conserved non-coding elements, transposons and other genomic features, for mouse liver. We found that the total CpG methylation of each methylome was strikingly similar among the 4 mouse liver samples from two different genetic backgrounds. Analysis of all CpG sites with at least 10x coverage showed a bimodal distribution of methylation, with all samples having 25% of hypermethylated CpG sites and 60% as hypomethylated CpG sites. Given the high percent of genome coverage and robust depth at single nucleotide level, these datasets provide a resource for investigation into changes in DNA methylation patterns in liver disease, tumorigenesis and regeneration.
|
| |
|
| Overall design |
Ehanced reduced representation bisulfite sequencing (MspI 70~320bp size fraction) of liver tissue
|
| |
|
| Contributor(s) |
Zhang C, Edepli KS, Lujambio A |
| Citation(s) |
27379160 |
| |
| Submission date |
Apr 28, 2016 |
| Last update date |
Sep 01, 2021 |
| Contact name |
Kirsten Sadler Edepli |
| E-mail(s) |
kirsten.edepli@nyu.edu
|
| Phone |
971568327587
|
| Organization name |
New York University Abu Dhabi
|
| Department |
Biology
|
| Street address |
PO Box 129188
|
| City |
Abu Dhabi |
| State/province |
Abu Dhabi |
| ZIP/Postal code |
000 |
| Country |
United Arab Emirates |
| |
|
| Platforms (1) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
|
| Samples (4)
|
|
| Relations |
| BioProject |
PRJNA319939 |
| SRA |
SRP074115 |
Less...
More...