RNA-Seq: Experimental Design, Analysis and Interpretation

Speaker:  Lior Pachter, PhD

Location:  Bren Hall 6011 UCI

Date:  Friday, September 30, 2011 – 11:00 – 13:00

RNA-Seq is an encompassing term for methods that probe a transcriptome by high-throughput sequencing.  We will provide an overview of RNA-Seq protocols, and will then focus on methods for analysis of RNA-Seq data.  A recurring them will be the subtle, yet crucial connections between experimental design and analysis choices.  We will focus on two tools we have developed:  the Cufflinks suite for RNA-Seq reference assembly, quantification and differential expression, and eXpress which allows for rapid analysis of massive datasets.  Results will be presented on a number of different datasets from human, mouse and Drosophila RNA-Seq experiments.