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Series GSE103249 Query DataSets for GSE103249
Status Public on Feb 27, 2018
Title Snord116-dependent diurnal rhythm of DNA methylation in mouse cortex
Organism Mus musculus
Experiment type Methylation profiling by high throughput sequencing
Summary Rhythmic oscillations of physiological processes depend on integrating the circadian clock and diurnal environment.  DNA methylation is epigenetically responsive to daily rhythms, as a subset of CpG dinucleotides in brain exhibit diurnal rhythmic methylation.  A major genetic effect on rhythmic methylation was identified in a mouse Snord116 deletion model of the imprinted disorder Prader-Willi syndrome (PWS).  > 23,000 diurnally rhythmic CpGs were identified in wild-type cortex, with nearly all lost or phase-shifted in PWS. Circadian dysregulation of a second imprinted Snord cluster at the Temple/Kagami-Ogata syndrome locus was observed at the level of methylation, transcription, and chromatin, providing mechanistic evidence of cross-talk.  Genes identified by diurnal epigenetic changes in PWS mice overlapped rhythmic and PWS-specific genes in human brain and were enriched for PWS-relevant phenotypes and pathways. These results support the proposed evolutionary relationship between imprinting and sleep, and suggest possible chronotherapy in the treatment of PWS and related disorders.
 
Overall design Examination of whole genome DNA methylation in mouse cerebral cortex throughout the diurnal cycle.
Genotypes: WT, Snord116+/-
Timepoints: ZT0, ZT3, ZT6, ZT9, ZT12, ZT16
n = 3 per condition
 
Contributor(s) Coulson RL, Dag YH, Dunaway K, Laufer BI, Vogel Ciernia A, Zhu Y, Mordaunt CE, Totah TS, LaSalle JM
Citation(s) 29691382
Submission date Aug 29, 2017
Last update date Mar 19, 2019
Contact name Rochelle Coulson
E-mail(s) rlcoulson@ucdavis.edu
Organization name University of California, Davis
Street address One Shields Ave.
City Davis
State/province CA
ZIP/Postal code 95616
Country USA
 
Platforms (1)
GPL21103 Illumina HiSeq 4000 (Mus musculus)
Samples (36)
GSM2758971 WT ZT0_rep1
GSM2758972 WT ZT0_rep2
GSM2758973 WT ZT0_rep3
Relations
BioProject PRJNA400623
SRA SRP116554

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Supplementary file Size Download File type/resource
GSE103249_RAW.tar 4.3 Gb (http)(custom) TAR (of BED)
SRA Run SelectorHelp
Processed data provided as supplementary file
Raw data are available in SRA

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