Events
CRiSM Seminar
Terry Speed, University of California, Berkeley
Alternative Splicing in Tumors: Detection and Interpretation
In this talk I will discuss using the Affymetrix GeneChip Human Exon
and Human Gene 1.0 ST arrays for the detection of genes spliced differently
in some tumors in comparison with others. I plan to begin by introducing
the arrays and the expression data they produce. Next I will outline the
way in which we use such data in our attempts to identify
exon-tumor combinations exhibiting splicing patterns different from the
majority. This will be illustrated by examples from publicly available tissue
and mixture data. Then I will briefly discuss some of the additional
issues which arise when we seek to enumerate such alternative splicing
patterns on a genome-wide scale. Finally, I will exhibit some of the results
we have found applying these methods to glioblastoma tissue samples
collected as part of The Cancer Genome Atlas (TCGA) project. (This is
joint work with ELizabeth Purdom, Mark Robinson, Ken Simpson, and members of
the Berkeley Cancer Genome Center.)