topic list chosen Sept. 30, 2003


Topics of interest fell into the following 4 general areas:

  • Genetic variation/population genetics
  • Complex traits
  • Expression data/phenotype-genotype
  • Computational issues/error detection

    The specific ideas suggested are the following:

  • Articles about implementation, data analysis on disease
  • Overview of computer programs that implement the methods
  • Data mining: finding meaningful patterns in sequence data, etc.

  • Genetic variation
  • Genotypic, haplotypic, and expression data?
  • From Lewontin (recent Edwards Bioassays note) to Cavalli/Feldman

  • The effect on linkage analysis of misspecification of parameters (trait model parameters, allele frequencies, etc.)

  • Using multivariate approaches for highly correlated traits in linkage analysis. See this file.
  • Detecting epistasis vs. heterogeneity in linkage studies.

  • MCMC methods for complex pedigrees.
  • Haplotype inference and analysis methods.

  • LD mapping
  • Multipoint analysis
  • Haplotype analysis

  • Completing Stephanie's talk from spring quarter!!

  • Follow-up to design/statistical analysis of microarray experiments (that we started in the spring)

  • Association mapping in context of evolution/population genetics
  • Different uses for gene arrays.

  • Detecting genotyping errors in general pedigrees/estimating underlying latent states.

  • High throughput quantification of protein expression

  • Gene mapping: Hoh J and Ott J (2003) "Mathematical multilocus approaches to localizing complex human trait genes" Nature Reviews Genetics 4:701-709.
  • LD and haplotypes: Morris A, Pedder A, et al (2003) "Linkage disequilibrium assessment via log-linear modeling of SNP haplotype frequencies" Genetic Epidemiology 25:106-114.