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#1803 - Statistics of genomics


Learning Center - Campus Sophia Polytech

Route des Colles · Sophia-Antipolis

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• M. Emily (Agrocampus Ouest, Rennes): "Statistics of gene-gene interaction in genome-wide association studies"

M. Emily:
Among the large number of statistical methods that have been proposed to identify gene-gene interactions in case-control genome-wide association studies (GWAS), gene-based methods have recently grown in popularity as they confer advantages both in terms of statistical power and biological interpretation. All of the gene-based methods jointly model the distribution of single nucleotide polymorphisms (SNPs) sets prior to the statistical test, leading to a limited power to detect sums of SNP-SNP signals. Our method, called AGGrEGATOr, instead is a gene-based method that first performs SNP-SNP interaction tests and then aggregates the obtained p-values into a test at the gene level.

The method is used to detect and replicate gene pairs in the Wellcome Trust Case Control Consortium dataset :
- Concerning rheumatoid arthritis (RA), 13 potential gene-gene interactions are identified and one gene pair is replicated at the level of 5%.
- Working on 15 gene pairs previously reported as being statistically associated with RA or Crohn's disease (CD) or coronary artery disease (CAD), AGGrEGATOr is the only method able to successfully replicate seven gene pairs.

Paper: M. Emily (2016): "AGGrEGATOr: A Gene-based GEne-Gene interActTiOn test for case-control association studies"
Software :