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

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'''1st meeting''': Fr. 27/2/09 with [[Murielle Bochud]]
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- 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).
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- Documents to read:
 +
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1) paper by Firmann et al. describing the CoLaus study: [[Media: Firmann.pdf]]
 +
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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]]
 +
 +
'''1st 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
 +
 +
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(Project in [[Course: "Solving Biological Problems that require Math"]])
 
(Project in [[Course: "Solving Biological Problems that require Math"]])

Revision as of 15:20, 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]]

1st 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")