Me
Photo: Sylvain Crouzet


I am a Professor in the Department of Mathematics at the University of Wisconsin-Madison, where I belong to the Probability Group and Applied Mathematics Group. I am also a member of the Institute for Foundations of Data Science (IFDS), I have an affiliate appointment in the Department of Statistics and I am affiliated with the Theory of Computing Group in the Department of Computer Sciences. My CV can be found here.

I work at the intersection of applied probability, statistics and theoretical computer science, with an emphasis on biological applications. More details on my research interests and publications can be found here. My work is currently supported by NSF grants DMS-1614242 and CCF-1740707 (TRIPODS), and a Simons Fellowship.

I am an associate editor for the Annals of Applied Probability. Submit a paper here.


News

Oct 2018: Our recent work with Karl Rohe on respondent-driven sampling has just appeared in PNAS.

Apr 2018: Our paper "Circular Networks from Distorted Metrics" with former Ph.D. student Jason Wang won Best Paper Award at RECOMB 2018.

Apr 2018: The Institute for Foundations of Data Science at UW-Madison, in collaboration with the NSF TRIPODS Institutes at the University of Washington and at the University of California-Berkeley, is organizing a summer school on July 24-28, 2018 in Madison. Apply by April 20 here.

Mar 2018: I am grateful to the Simons Foundation for supporting my upcoming sabbatical (2018-2019) through a Simons Fellowship.

Jan 2018: My paper with Mike Steel on "Likelihood-based tree reconstruction on a concatenation of aligned sequence data sets can be statistically inconsistent" received Honorable Mention in the 2018 Marcus W. Feldman Prize in Theoretical Population Biology.

Aug 2017: The new Institute for Foundations of Data Science has been funded through the NSF TRIPODS and NSF Growing Convergence Research programs. More details here and here. The website of IFDS is here.


Currently Teaching

Fall 2018 and Spring 2019: on sabbatical


Lecture notes and tutorials

Graduate course on modern discrete probability

Topics course on stochastic processes in evolutionary genetics

First year of graduate probability theory

Brief survey of mathematical phylogenetics

Tutorial on sequence-length requirements in phylogenetics

Summer school slides on probability on graphs with applications to data science

Tutorial slides on mathematical phylogenomics


Selected Publications (full list here)

Generalized least squares can overcome the critical threshold in respondent-driven sampling
Proceedings of the National Academy of Sciences, 115(41):10299-10304, 2018. With Karl Rohe.
Circular Networks from Distorted Metrics
Proceedings of RECOMB 2018, 167-176. With J. Wang.
(Best Paper Award, RECOMB 2018)
Distance-based species tree estimation under the coalescent: information-theoretic trade-off between number of loci and sequence length
Ann. Appl. Probab., 27(5)-2926-2955, 2017. With E. Mossel.
Conference abstract in Proceedings of RANDOM 2015, 931-942.
Phase transition in the sample complexity of likelihood-based phylogeny inference
Probability Theory and Related Fields, 169(1), 3-62, 2017. With A. Sly.
Access the recommendation on F1000Prime
Species trees from gene trees despite a high rate of lateral genetic transfer: A tight bound
Proceedings of ACM-SIAM SODA 2016, 1621-1630. With C. Daskalakis.
On the robustness to gene tree estimation error (or lack thereof) of coalescent-based species tree methods
Systematic Biology, 64(4):663--676, 2015. With T. Warnow.
Likelihood-based tree reconstruction on a concatenation of aligned sequence data sets can be statistically inconsistent
Theoretical Population Biology, 100:56-62, 2015. With M. Steel.
(Honorable Mention, 2018 Marcus W. Feldman Prize in Theoretical Population Biology.)
Access the recommendation on F1000Prime
Alignment-Free Phylogenetic Reconstruction: Sample Complexity via a Branching Process Analysis
Annals of Applied Probability, 23(2):693-721, 2013. With C. Daskalakis.
Conference abstract in Proceedings of RECOMB 2010, 123-137.
Submodularity of Influence in Social Networks: From Local to Global
SIAM J. Comput., 39(6):2176-2188, 2010. With E. Mossel.
Conference abstract in Proceedings of ACM STOC 2007, 128-134.
Toward Extracting All Phylogenetic Information from Matrices of Evolutionary Distances
Science, 327(5971):1376 - 1379, 2010. (Posted by permission of the AAAS for personal use, not for redistribution.)
Upstream Reciprocity and the Evolution of Gratitude
Proceedings of the Royal Society B: Biological Sciences, 274(1610):605-609, 2007. With M. Nowak.
Review in The Daily Telegraph
Review in PhysOrg.com
A Short Proof that Phylogenetic Tree Reconstruction by Maximum Likelihood is Hard
IEEE/ACM Transactions on Computational Biology and Bioinformatics, 3(1):92-94, 2006.

A full list of publications is available here.


Contact Information

Office: Van Vleck 823
Phone: 608-263-3053
Fax: 608-263-8891
lastname[at]math[dot]wisc[dot]edu
Department of Mathematics
University of Wisconsin-Madison
480 Lincoln Drive
Madison, WI 53706
updated: 10/26/18