I am currently undertaking research and development for a start-up company that I have co-founded, DoseMe Pty Ltd, producing a software product that more accurately assists in determining the individually optimum dose of a given drug to give to a patient to reach a desired therapeutic range.

From 2008 till 2011, I completed a PhD in Assoc. Prof Timothy Bailey's group at the Institute for Molecular Bioscience, at The University of Queensland, Australia. This focused on developing tools and methods to better under transcription factor binding and gene expression. One key focus of my PhD was on integrating epigenetic (and particularly, histone modification) data into in silico methods of predicting transcription factor binding. This both greatly improves accuracy (less false positives), and allows these methods to be tissue-specific.

Published papers:

Software Tools:

  • AME & RAMEN - Motif enrichment analysis. Find transcription factor motifs over-represented in a set of genes. AME is now maintained in the MEME Suite, and porting RAMEN is in progress.
  • DR Gene - Identify promoters bound by a given transcription factor in a tissue-specific manner (i.e. find Directly Regulated Genes).
  • WigShrink - Reduce the size of a "wiggle" file by removing unnecessary runs of zeros.
  • Genome-wide gene expression modelling - Supplementary data and scripts for gene expression modelling (for a submitted paper).