CS700:Graduate Seminar in Computer Science & Informatics

Genomic analysis of pre-mRNA alternative splicing


Alternative splicing of precursor mRNAs is a prevalent mechanism of gene regulation in higher eukaryotes. It generates enormous transcriptome diversity from a limited repertoire of protein-coding genes in the genome. Almost three quarters of multi-exon genes in the human genome are alternatively spliced. In this talk, I will describe the use of high-density exon tiling microarrays for global analysis of pre-mRNA alternative splicing. I will introduce a new computational method for analysis of alternative splicing using Affymetrix Exon 1.0 array data. By recognizing and correcting for microarray noise such as background and cross-hybridization, our method can identify differential alternative splicing events at a very low false positive rate. I will also discuss the impact of alternative splicing on the evolution of mammalian genomes, inferred from comparative analyses of transcriptome data from multiple species.
Dr. Yi Xing is Assistant Professor of Internal Medicine and Biomedical Engineering at the University of Iowa. He received his Ph.D. in Molecular Biology from UCLA, and was a post-doctoral researcher at the Department of Statistics and Department of Developmental Biology, Stanford University, from 2006 to 2007. Dr. Xing's research interest is in Pre-mRNA Splicing and Alternative Splicing, Comparative and Evolutionary Genomics, and Microarray Data Analysis.