School of Population Health

Discovering Larger-than-Gene Antibiotic-Resistance Structures using computational grammars

image - 1339554358 Attacca

We propose to use highly innovative computational grammars to identify and discover complex multi-gene patterns called larger-than-gene structures. Evolutionary theory and anecdotal evidence show that known structures often have profound effect on cell behaviour due to the number of genes involved and as such are an important subject matter. We will develop inference algorithms and tools to conduct the ?rst systematic search for larger-than-gene structures.

We use highly innovative computational grammars to identify and discover complex multi-gene patterns called larger-than-gene structures. Evolutionary theory and anecdotal evidence show that known structures often have profound effect on cell behaviour due to the number of genes involved and as such are an important subject matter. We develop inference algorithms and tools to conduct the first systematic search for larger-than-gene structures. We validate our algorithms in two important domains: simultaneous multiple antibiotic resistances, and the simultaneous regulation of multiple adjacent genes that leads to cancer. Neither task is tractable with contemporary sequence analysis methods.

Project Members
image - 1323127848 Guy Tsafnat
Dr Guy Tsafnat
Casual Academic
Project Supporters

University of New South Wales - Goldstar-ARC|DP120100758