PLEASE NOTE CHANGE OF LOCATION FOR WINTER QUARTER
M112 Alway Building, Medical Center
(next to the Dean's courtyard)
|DATE:||January 19, 2017|
|TIME:||1:30 - 2:50 pm|
|TITLE:||High-throughput and full-length characterization of transcript isoforms and their function|
|SPEAKER:||Angela Brooks, Assistant Professor of Biomolecular Engineering
Faculty of the UCSC Genomics Institute
University of California, Santa Cruz
Although over 95% of human genes are alternatively processed into multiple transcript isoforms, our current short-read sequencing methods are limited in their ability to identify and quantify full-length transcripts due to the complexity of alternative isoforms. Moreover, even if we were able to accurately quantify full-length transcripts, there is limited functional evidence of how isoform changes result in changes in function for the vast majority of genes. Our lab is developing computational methods for full-length isoform-level expression analysis using nanopore sequencing technology and developing high-throughput experimental characterization of the functional impact of isoform changes on gene function. A complete characterization of transcript isoforms is critical to the biomedical field as splicing has been shown to be a major source of expression differences linked to genetic differences between individuals and splicing is known to be altered in human disease, such as cancer.
Oikonomopoulos, et al. 2016, “Benchmarking of the Oxford Nanopore MinION sequencing for quantitative and qualitative assessment of cDNA populations”: http://www.nature.com/articles/srep31602
Berger, Brooks, Wu, et al. 2016, “High-throughput Phenotyping of Lung Cancer Somatic Mutations”.