Infinium MethylationEPIC Array Service

Analysis

Features

Standard

Standard files provided:

• Sample annotation
• Variable annotation
• Scanner output (IDAT files)

Differential methylation analysis

Identification of differentially methylated CpGs between sample groups.

Files provided:

• Report with summary of differential methylation analysis and plots
• File containing the differentially methylated CpGs and breakdown of those positions in regional analysis (CpG islands, shelves, shores and open sea)
• File containing differential methylated regions (DMRs)

Gene ontology terms analysis

Enrichment analysis on gene sets. Gene Ontology terms that are overrepresented in differentially bound regions may indicate the underlying biological processes involved.

Pathway analysis

Identify biochemical pathways in which genes associated with differentially methylated regions (or individual differentially methylated CpGs) may be overrepresented.

Decitabine increases neoantigen and cancer testis antigen expression toenhance T cell-mediated toxicity against glioblastoma.
Ma Ruichong et al.
BACKGROUND: Glioblastoma (GBM) is the most common and malignant primary brain tumour in adults. Despite maximal treatment, median survival remains dismal at 14-24 months. Immunotherapies, such as checkpoint inhibition, have revolutionised management of some cancers but have little benefit for GBM patients. This is, ...

Enhanced cell deconvolution of peripheral blood using DNA methylation for high-resolution immune profiling
Lucas A Salas, Ze Zhang, Devin C Koestler, Rondi A Butler, Helen M Hansen, Annette M Molinaro, John K Wiencke, Karl T Kelsey, Brock C Christensen
DNA methylation microarrays can be employed to interrogate cell-type composition in complex tissues. Here, we expand reference-based deconvolution of blood DNA methylation to include 12 leukocyte subtypes (neutrophils, eosinophils, basophils, monocytes, B cells, CD4+ and CD8+ naïve and memory cells, natural kil...

Interplay between Histone and DNA Methylation Seen through Comparative Methylomes in Rare Mendelian Disorders
Guillaume Velasco, Damien Ulveling,Sophie Rondeau,Pauline Marzin,Motoko Unoki,Valérie Cormier-Daire, Claire Francastel
DNA methylation (DNAme) profiling is used to establish specific biomarkers to improve the diagnosis of patients with inherited neurodevelopmental disorders and to guide mutation screening. In the specific case of mendelian disorders of the epigenetic machinery, it also provides the basis to infer mechanistic aspects...

Genome-wide DNA methylation and transcriptome integration reveal distinct sex differences in skeletal muscle
Shanie Landen, Macsue Jacques , Danielle Hiam , Javier Alvarez, Nicholas R Harvey, Larisa M. Haupt, Lyn R, Griffiths, Kevin J Ashton, Séverine Lamon, Sarah Voisin, Nir Eynon
Nearly all human complex traits and diseases exhibit some degree of sex differences, and epigenetics contributes to these differences as DNA methylation shows sex differences in various tissues. However, skeletal muscle epigenetic sex differences remain largely unexplored, yet skeletal muscle displays distinct sex d...

ZNF718, HOXA4, and ZFP57 are differentially methylated inperiodontitis in comparison with periodontal health: Epigenome-wide DNAmethylation pilot study.
Hernández H.G. et al.
OBJECTIVE: To investigate the differences in the epigenomic patterns of DNA methylation in peripheral leukocytes between patients with periodontitis and gingivally healthy controls evaluating its functional meaning by functional enrichment analysis. BACKGROUND: The DNA methylation profiling of peripheral leukocytes ...