|Public on Feb 16, 2017
|Young (2 Month) Rep 3
|sample type: UM-HET3
|Some mice were given encapsulated rapamycin at a drug dose of 42 ppm from 4 months of age. For other mice, a calorie restricted diet was initiated at 4 months; these mice received 60% of the food consumed by age-matched controls, after a two week run-in period at 80%.
|Genetically hetrogenous UM-HET3 female mice were bred and housed at the university of Michigan. They are the offspring of (BALB/cByJ x C57BL/6J)F1 mothers and (C3H/HeJ x DBA/2J)F1 fathers. They were housed in a specific-pathogen free colony at four mice/cage and given a diet based on Purina 5LG6.
|DNA was extracted by Dneasy blood and tissue kit (Quiagen)
Libraries were prepared by BGI, Shenzhen. Briefly, DNA is fragmented and methylated adapters are ligated to DNA fragments. DNA is bisulphite treated and sequenced on Illumina platforms as per manufacturers instructions.
|Illumina HiSeq 4000
|Bisulfite sequencing of young (2 month) untreated mice (UM-HET3)
|Basecalls performed in phred64 (solexa1.3-quals).
Sequenced reads were mapped to mm9 whole genome using bismark v0.10.1 (bowtie2 v2.1.0) with directional setting and chunkmbs set to 256. Remaining default settings.
Multiple reads where both ends of the fragment align to the same genomic positions on the same strand were reduced to a single instance. Reads with more than 3 methylated cytosines in non-CpG contexts are discarded.
Reads are summarised on a per-CpG basis.
Supplementary_files_format_and_content: Summary files represent the number of reads supporting methylated/unmethylated bases at each CpG sequenced in that sample (Format is: chr <tab> position <tab> methylated reads <tab> unmethylated reads).
|Oct 28, 2016
|Last update date
|May 15, 2019
|Neil A Robertson
|University of Glasgow
|Beatson Institute for Cancer Research
|Diverse interventions that extend mouse lifespan suppress shared age-associated epigenetic changes at critical gene regulatory regions (WGBS 2)
|Diverse interventions that extend mouse lifespan suppress shared age-associated epigenetic changes at critical gene regulatory regions