Symposium on New Methods for Phylogenomics and Metagenomics
ACES 2.302, Avaya Auditorium
The University of Texas at Austin
February 16, 2013

This symposium is funded by the National Science Foundation through grant DEB 0733029 to the University of Texas, see http://www.cs.utexas.edu/~tandy/ATOL-MSA.html, and also supported by the Center for Computational Biology and Bioinformatics at UT-Austin. All talks will be held in the ACES Avaya Auditorium at the SE corner of 24th and Speedway.

Symposium Schedule (February 16)

• 8:00-8:45, Breakfast (provided) in NHB 1.720
• 9:00-9:15 Introductions by Hans Hofman, Randy Linder, Tandy Warnow, and conference logistics (PDF).
• 9:15-9:45 Tandy Warnow (Texas), "New divide-and-conquer approaches for ultra-large multiple sequence alignment and phylogeny estimation methods" (PDF).
• 9:45-10:15, Mark Holder (Kansas), "Multitree Generalized Steppingstone Sampling - A New MCMC method for estimating the marginal likelihood of a model". Joint work with Paul O. Lewis, David L. Swofford, and David Bryant (PDF)
• 10:15-10:45, Sebastien Roch (Wisconsin), "Alignment-free phylogenetic reconstruction" (PDF).
• 10:45-11:15, Eric Nawrocki (Janelia Farm, HHMI), "Multiple alignment using sequence family profiles" (PDF)
• 11:15-11:45, Ben Redelings (NESCENT), "Robust handling of alignment uncertainty when inferring positive selection from divergent sequences" (PDF)
• 11:45-12:15, Luay Nakhleh (Rice), "Phylogeny inference in the presence of hybridization and incomplete lineage sorting" (PDF)
• 12:15-1:15, Lunch (provided)
• 1:30-2:00, Matt Rasmussen (Cornell), "Phylogenomics of closely related species and individuals" (PDF).
• 2:00-2:30, Bret Larget (Wisconsin), "The consequences of approximate conditonal independence of subtrees on phylogeny estimation" (PDF).
• 2:30-3:00, Joseph Heled (Auckland), "Bayesian MCMC co-estimation of gene trees and species trees in the presence of ILS" link to files
• 3:00-3:30, Coffee Break
• 3:30-4:00, Dan Brown (Waterloo), "Using locality-sensitive hashing to speed up tree estimation and phylogenetic placement" (PDF)
• 4:00-4:30, Curtis Huttenhower (Harvard), "From microbes to microbiota and back: using thousands of genomes to understand thousands of metagenomes" (PDF)
• 4:30-5:00, Jim Leebens-Mack (Georgia), ``Phylogenomic analysis - lessons from the 1KP Project" (PDF)
• 5:00-5:30, Discussion and Q&A

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