Difference between revisions of "Whole genome association study: Alcohol consumption in the Cohorte Lausannoise"

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'''References''': see [[Genome Wide Association Studies]]
 
'''References''': see [[Genome Wide Association Studies]]
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4) one paper in French describing the epidemiology of alcohol and tobacco. [tabac_alcool.pdf]]
 
4) one paper in French describing the epidemiology of alcohol and tobacco. [tabac_alcool.pdf]]
  
'''1nd meeting''': Fr. 6/3/09 with [[Sven Bergmann]]
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'''2nd meeting''': Fr. 6/3/09 with [[Sven Bergmann]]
 
- with all four students (2 for alcohol and 2 for tobacco GWAS).
 
- with all four students (2 for alcohol and 2 for tobacco GWAS).
 
- basics on regression and GWAS methodology
 
- basics on regression and GWAS methodology

Revision as of 15:21, 3 March 2009

Background: The Cohorte Lausannoise (CoLaus) includes more than 6,000 individuals that have been extensively phenotyped for clinical observables related to cardiovascular risk factors and who have been genotyped for about half a million single nucleotide polymorphisms (SNPs).

Goal: The goal of the project is to perform a genome-wide association study that will potentially identify SNPs that are related to “alcohol consumption” and related phenotypes.

Mathematical tools: The tool of choice for this project is regression analysis. The student will learn the basics of regressing a given phenotype to a genotype and how this analysis is implemented on a computer to handle a large number of SNPs. If time permits the student will explore the effect of other phenotypes as covariables and/or environmental interactions.

Biological or Medical aspects: The “biology supervisor” will provide background of the medical significance of alcohol consumption in the general population and in the context of cardiovascular risks.

Supervisors: Murielle Bochud & Sven Bergmann

Presentation: Media:Murielle.ppt

References: see Genome Wide Association Studies


1st meeting: Fr. 27/2/09 with Murielle Bochud

- with all four students (2 for alcohol and 2 for tobacco GWAS).

- explained how data have been collected

- discussed which type of phenotypes should be use in the analyses (i.e. how new or corrected phenotypes can be they be constructed from the questionnaire data).

- Documents to read:

1) paper by Firmann et al. describing the CoLaus study: Media: Firmann.pdf

2) the CoLaus questionnaire (so that they can see how the phenotypic data was generated) Media: questColaus 1.doc

3) the CoLaus codebook, so that they can see the names of the variables. Media: codage des variable.pdf

4) one paper in French describing the epidemiology of alcohol and tobacco. [tabac_alcool.pdf]]


2nd meeting: Fr. 6/3/09 with Sven Bergmann - with all four students (2 for alcohol and 2 for tobacco GWAS). - basics on regression and GWAS methodology - population stratification


(Project in Course: "Solving Biological Problems that require Math")