Epigenetic & High-Dimension Mediation Data Challenge

Aussois, Vanoise national park, June 7th-9th 2017

mediation

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Overview 

Progresses in high-throughput sequencing make it possible to study how epigenetic changes mediate the effect of environmental risk factors on diseases.  Epigenetic changes are said to be mediators when they intervene in the causal pathway between environmental exposures and diseases. As an example, the figure above represents a mediation model where epigenetic changes partly mediate the effect of air pollution on birth weight.

Mediation analyses for large-scale omics data raise several challenges. The Epigenetic & High Dimension Mediation Data Challenge seeks to introduce and apply key statistical methods for multidimensional mediation analysis in epidemiology. 


We will provide the necessary background to participate to the Data Challenge, which includes introductory lectures and demo in R about multiple hypotheses testing, epigenome-wide association studies (EWAS), and statistical mediation analyses.

To promote collaboration between participants during the Data Challenge, we will show how to share source codes using R notebooks and github.

Participants will have the opportunity to present their own research during poster sessions.

Participants should bring their own laptop in order to be able to participate to the Data Challenge.

Who can attend?

Researchers or students interested in mediation analysis in a multi-dimensional setting are welcomed. The data challenge is open to researchers from various backgrounds (statisticians, epidemiologists, biologists, physicists). The data challenge concerns mediation analysis in epigenomics but the statistical concepts we introduced are also relevant for other multidimensional data.

We expect that participants are familiar with the R software and with standard statistical notions such as linear regression, and P-values.

Organizers

We are a group of researchers interested in data science methodologies for analyzing large biomedical data. Our group of organizers includes Michael Blum (TIMC-IMAG), Olivier Francois (TIMC-IMAG), Johanna Lepeule (IAB), Magali Richard (TIMC-IMAG), Adeline Leclercq Samson (LJK), and Remy Slama (IAB).

Relevant references

Liu, Y et al. "Epigenome-wide association data implicate DNA methylation as an intermediary of genetic risk in rheumatoid arthritis." Nature biotechnology 31.2 (2013): 142-147.

Kupers, L et al. "DNA methylation mediates the effect of maternal smoking during pregnancy on birthweight of the offspring." International journal of epidemiology 44.4 (2015): 1224-1237.

VanderWeele, TJ "Mediation Analysis: A Practitioner's Guide." Annual review of public health 37 (2016): 17-32.

Zhang, H et al. "Estimating and testing high-dimensional mediation effects in epigenetic studies." Bioinformatics (2016)

Grenoble Alpes Data Institute

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