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From Gene Trees to Species Trees: Algorithms for Parsimonious Reconciliation
One of the criteria for inferring a species tree from a collection of gene trees, when gene tree incongruence is assumed to be due to incomplete lineage sorting (ILS), is minimize deep coalescence , or MDC. Exact algorithms ...
A Sequence-Based, Population Genetic Model of Regulatory Pathway Evolution
Complex phenotypes with genetic cause are understood through many processes, including regulatory pathways, but our evolutionary understanding of these critical structures is undermined by poor models which fail to preserve ...
Molecules in motion: Computing structural flexibility
Growing databases of protein sequences in the post-genomic era call for computational methods to extract structure and function from a protein sequence. In flexible molecules like proteins, function cannot be reliably ...