MIG SNP-based heritability workshop – 11 December, 2018
MIG Workshop Series
Understanding the Genetic Architecture of Complex Traits through SNP-heritability analysis
Tuesday 11th December
The University of Melbourne
Professor David Balding (MIG) and Dr Doug Speed (Aarhus University) have delivered similar workshops in London (3 times all sold out), Denmark and Estonia.
Course outline
This workshop will cover genome-wide association analysis, including latest developments in confounding adjustments, and heritability analyses, both using individual-level genetic data (GCTA, LDAK) and using summary statistics (LDSC, SumHer). The workshop will also cover assessing heritability enrichment in functionally-annotated regions, genetic correlation and risk prediction (e.g., polygenic risk scores, BLUP and MultiBLUP). The common elements of these methods will be emphasised, highlighting a standard framework that has emerged for genome-wide SNP analysis, while also contrasting the differences in modelling assumptions underlying the different software.
The practicals will provide step-by-step details for analysing genetic data, starting either with individual-level data (e.g., PLINK files or the output from IMPUTE2) or summary statistics (p-values from a GWAS). There will be a selection of worked examples; to take part in the practicals, participants should bring a laptop preferably with either MAC or LINUX OS although Windows laptop users can also participate via a remote login using PuTTY or similar.
Prerequisites
Participants should be proficient in statistics including maximum-likelihood estimation and hypothesis testing, preferably some familiarity with random-effects regression models and experience of computer-based data analysis. In genetics, knowledge of SNP genotyping and Hardy-Weinberg and linkage equilibria will be assumed. Computer scripts and output will be discussed that assume some familiarity with scientific computing using linux. Some familiarity with PLINK would be helpful, but is not essential.
Details
The workshop will be taught from 10am to 4:30pm.
Registration fees (Staff = $200, Students = $140) include coffee breaks and lunch.
Register via Eventbrite here: http://go.unimelb.edu.au/33g6
Enquiries: Andrew Siebel (asiebel@unimelb.edu.au)