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]] | '''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). | - with all four students (2 for alcohol and 2 for tobacco GWAS). | ||
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- explained how data have been collected | - explained how data have been collected | ||
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- 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). | - 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: | - Documents to read: | ||
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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]] |
- 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 16:21, 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]]
1nd 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")
