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
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
Introductions by Hans Hofman,
Tandy Warnow, and
conference logistics (PDF).
Tandy Warnow (Texas),
"New divide-and-conquer approaches for ultra-large
multiple sequence alignment and
phylogeny estimation methods" (PDF).
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
Sebastien Roch (Wisconsin),
"Alignment-free phylogenetic reconstruction"
Eric Nawrocki (Janelia Farm, HHMI),
"Multiple alignment using sequence family
Ben Redelings (NESCENT),
"Robust handling of alignment
uncertainty when inferring positive selection from divergent sequences"
Luay Nakhleh (Rice),
"Phylogeny inference in the presence of hybridization and incomplete
lineage sorting" (PDF)
12:15-1:15, Lunch (provided)
Matt Rasmussen (Cornell),
"Phylogenomics of closely related species and individuals"
Bret Larget (Wisconsin),
"The consequences of approximate conditonal independence of subtrees
on phylogeny estimation" (PDF).
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
Dan Brown (Waterloo),
"Using locality-sensitive hashing to speed up tree estimation and
phylogenetic placement" (PDF)
Curtis Huttenhower (Harvard),
"From microbes to microbiota and back: using thousands of genomes to
understand thousands of metagenomes"
Jim Leebens-Mack (Georgia),
``Phylogenomic analysis - lessons from the 1KP Project"
5:00-5:30, Discussion and Q&A
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the webpage about the Symposium and Workshop.