STATISTICAL ANALYSIS OF
GENOMIC DATA
June 22 - July 3, 2012
Application Deadline: March 15, 2012

Instructors:
Naomi Altman, Penn State University
Harmen Bussemaker, Columbia University
Olivier Elemento, Weill Cornell Medical College
Steve Horvath, University of California Los Angeles
Mark Reimers, Virginia Commonwealth University

High-throughput genomics assays have become pervasive in modern biological research. To properly interpret these data, experimental and computational biologists need to have a firm grasp of statistical methodology. This course is designed to build competence in quantitative methods for the analysis of high-throughput molecular biology data.

Topics include:
• Review of R and introduction to Bioconductor
• Review of statistical methods for genomics
• Microarray technologies
• High-throughput sequencing technologies
• Basic analysis (quality control, normalization)
• Analysis using predefined gene sets
• Cis-regulatory sequence analysis
• Modeling of transcriptional networks
• DNA methylation assays and DNase I footprinting
• Expression profiling by RNA-Seq
• Analysis of ChIP-chip and ChIP-Seq data
• Integration of multiple data types
• Expression QTL analysis

Format:
Detailed lectures and presentations by guest speakers in morning and evening will be combined with hands-on computer tutorials in the afternoon. The methods covered in the lectures will be applied to public high-throughput data sets, primarily human, mouse and yeast data. Students will be expected to have a basic familiarity with the R programming language at the start of the course.

Speakers last year included:
Aedin Culhane, Dana Farber Cancer Institute
Sean Davis, National Institutes of Health
Olivier Elemento, Weill Cornell Medical College
Bruce Futcher, Stony Brook University
Kasper Hansen, Johns Hopkins University
Steve Horvath, University of California, Los Angeles
Wolfgang Huber, EMBL, Germany
Tim Hughes, University of Toronto, Canada
Jason Lieb, University of North Carolina, Chapel Hill
Robert Lucito, Cold Spring Harbor Laboratory
John Storey, Princeton University

This course may be supported with funds provided by:
National Institute of General Medical Sciences