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Series GSE40360 Query DataSets for GSE40360
Status Public on Nov 24, 2013
Title DNA methylation differences between multiple sclerosis and controls in frontal lobe white matter
Organism Homo sapiens
Experiment type Methylation profiling by array
Summary Using the Illumina 450K array and a stringent statistical analysis with age and gender correction, we report genome-wide differences in DNA methylation between pathology-free regions derived from human multiple sclerosis–affected and control brains. Differences were subtle, but widespread and reproducible in an independent validation cohort. The transcriptional consequences of differential DNA methylation were further defined by genome-wide RNA-sequencing analysis and validated in two independent cohorts. Genes regulating oligodendrocyte survival, such as BCL2L2 and NDRG1, were hypermethylated and expressed at lower levels in multiple sclerosis–affected brains than in controls, while genes related to proteolytic processing (for example, LGMN, CTSZ) were hypomethylated and expressed at higher levels. These results were not due to differences in cellular composition between multiple sclerosis and controls. Thus, epigenomic changes in genes affecting oligodendrocyte susceptibility to damage are detected in pathology-free areas of multiple sclerosis–affected brains.
Overall design 47 samples analyzed in total: 17 MS females, age 55.5 ± 10.3 years; 11 MS males, age 55.0 ± 9.9 years; 7 control females, 69.1 ± 9.2 years; 12 control males, 64.7 ± 8.0 years. From each individual, white matter was dissected from the frontal lobe and global DNA methylation levels were assessed using Illumina Infinium HumanMethylation450 BeadChip.
Contributor(s) Huynh JL, Garg P, Sharp AJ, Casaccia P
Citation(s) 24270187
Submission date Aug 24, 2012
Last update date Mar 22, 2019
Contact name Patrizia Casaccia
Organization name ASRC-CUNY
Department Neuroscience
Street address 85 St Nicholas Terrace
City New York
State/province NY
ZIP/Postal code 10031
Country USA
Platforms (1)
GPL13534 Illumina HumanMethylation450 BeadChip (HumanMethylation450_15017482)
Samples (47)
GSM991986 MS4218
GSM991987 MS3931
GSM991988 MS2771
BioProject PRJNA173693

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE40360_GenomeStudio_norm_bg.txt.gz 442.2 Mb (ftp)(http) TXT
GSE40360_RAW.tar 183.1 Mb (http)(custom) TAR
GSE40360_RAW_nonorm_nobg.txt.gz 436.5 Mb (ftp)(http) TXT
Processed data included within Sample table
Processed data are available on Series record

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