Academia

I am currently a post-doc in the lab of Sean Myles at Dalhousie University.

Contact Detils

Myles Laboratory
Atlantic Food and Horticulture Research Centre
32 Main Street
Kentville, Nova Scotia
B4N 1J5
Canada

daniel.money<at>dal.ca

Current Research

My current research focuses on genotype imputation. Genotype imputation is often used with next-generation DNA sequencing to improve the results of downstream analysis such as Genome Wide Association Scans (GWAS). Most current genotype imputation methods were developed for human or other high quality data sets where there is a pool of reference samples and sequencing is often done at sufficient depth to make confident genotype calls. In non-model organisms, such as apple (Malus domestica), this is often not the case and my research focuses on evaluating existing methods on these datasets and developing new imputation methods.

Background

From November 2011 to November 2013 I was a post doc in the lab of Mark Holder at the University of Kansas. My research focused on methods for detecting and correcting a class of alignment errors: over compression. Each column in an alignment represents residues that should be inherited from a common ancestor. Under a strict interpretation of homology, each site in an alignment can be explained at most one insertion, but possibly multiple deletions. In a compressed alignment, residues inherited from an insertion event appear in the same column as residues that did not arise from that event. Our method compares site-likelihoods under a model that allows multiple insertions to site-likelihoods under a form of stochastic Dollo model which prohibits multiple insertions in the same column. Site-likelihood comparisons that favour multiple insertions can be used to guide the splitting of a single column into two or more columns in which all of the residues do appear to be homologous.

I completed my PhD at the University of Manchester in 2011, working in the lab of Dr. Simon Whelan, who is now at Uppsala University. My PhD research was focused on two areas, linked by the common thread of phylogenetic trees:

Previous to doing my PhD I completed a MSc in Bioinformatics, also at the University of Manchester. Between my first degree and my masters I work for the UK Ministry of Defence near Bath, for five years. I obtained my first degree, a BSc in Computer Science, from the University of Wales, Swansea (now the University of Swansea).

Publications

Software

CV

My CV (PDF)