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
- -across populations
- -across pedigrees within populations
- -across phenotypes
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
- -corresponding technologies
- -capacity
- -statistical issues in quantification
- -experiments connecting this data with genetic data or with mRNA
- -expression data
- -classical/small examples where protein and genetics has been combined
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.