When: February 4, 2015, 1:00 PM
Location: 1st floor (west end of building by the Entrepreneurial Resource Center), Discovery Building
Cost: Free and open to the public
Contact: 608-316-4325, email@example.com
Mark Craven speaks on Inferring Relevant Subnetworks from Genome-Wide Experiments
A common challenge that arises in genome-wide studies is to explain how a set of genes identified as relevant in a given experiment are organized into pathways that account for the response of interest. We have been investigating methods, based on integer linear programming, that address this challenge. Given a set of genes implicated in a particular response, and a “background network” representing known intracellular interactions, these methods elucidate “relevant subnetworks” that hypothesize how the genes might affect the response. In this talk, I will describe how we have applied these methods to infer subnetworks characterizing (i) the host cell subnetworks that are exploited in virus replication, (ii) the signaling subnetwork that controls the transcriptional response to stress in yeast, and (iii) the transcriptional subnetwork that is regulated by a nuclear receptor implicated in breast cancer. I will also discuss how we are extending these approaches by exploiting information automatically extracted from the scientific literature, and by using the subnetworks to determine which subsequent experiments are likely to be most informative.
SysBioM Seminars are sponsored by the Systems Biology Theme in the Wisconsin Institute for Discovery and feature speakers from various disciplines of Systems Biology including, but not limited to Genetics, Biostatistics, Microbiology, and Chemical and Biological Engineering.
The talks are located on the first floor west side of the Discovery Building in the ERC Lobby.
For more information please contact plpointer “at” wisc.edu