The Chinese University of Hong Kong
Department of Computer Science and Engineering

Seminar

Title: A coherent approach for analysis of the Illumina HumanMethylation450 BeadChip improves data quality and performance in epigenome-wide association studies
Date: September 21, 2015 (Monday)
Time: 11:00 a.m. - 12:00 noon
Venue: Room 121, 1/F, Ho Sin-hang Engineering Building,
The Chinese University of Hong Kong,
Shatin, N.T.
Speaker: Dr. Alexander Drong
Postdoctoral research scientist
University of Oxford
United Kingdom

 

ABSTRACT:

DNA methylation plays a fundamental role in the regulation of the genome, but the optimal strategy for analysis of genome-wide DNA methylation data remains to be determined. We developed a comprehensive analysis pipeline for epigenome-wide association studies (EWAS) using the Illumina Infinium HumanMethylation450 BeadChip, based on 2,687 individuals, with 36 samples measured in duplicate. We propose new approaches to quality control, data normalisation and batch correction through control-probe adjustment and establish a null hypothesis for EWAS using permutation testing. Our analysis pipeline outperforms existing approaches, enabling accurate identification of methylation quantitative trait loci for hypothesis driven follow-up experiments.

 

BIOGRAPHY:

Alex recently finished his Wellcome Trust Genomic Medicine and Statistics DPhil studentship supervised by Cecilia Lindgren and Mark McCarthy. The DPhil project focused on large-scale assessments of the role of epigenetic marks, such as DNA methylation, in obesity and type 2 diabetes (T2D) using primary analyses of >3,000 samples and a meta-analysis of 10,000 BMI samples . As part of the project, he developed novel methodology to process these data on high performance clusters. Currently, he is working as a postdoctoral research scientist at the Wellcome Trust Centre for Human Genetics.

 

Enquiries: Miss Evelyn Lee at tel 3943 8444

For more information, please refer to http://www.cse.cuhk.edu.hk/seminar.

 

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