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Ruth Davidson

I am at the University of Illinois Urbana-Champaign Department of Mathematics as an NSF postdoctoral fellow (DMS 1401591) working with Tandy Warnow and part-time J.L. Doob Research Assistant Professor. My professional mentor in the Department of Mathematics is Bruce Reznick.


Contact: redavid2@illinois.edu

Office: 165 Altgeld Hall

Office Hours Fall 2016: By Appointment. Appointment requests are always welcome!

My CV

Research

My areas of research interest are mathematical phylogenetics, geometric combinatorics, and algebraic statistics.

Papers istribution of Distance Data File

With Augustine O'Keefe and Daniel Parry. A new shellability proof of an old identity of Dixon. Submitted. arXiv:1512.00080

With MaLyn Lawhorn, Noah Webern, and Joseph Rusinko: Efficient Quartet Representations of Trees and Applications to Supertree and Summary Methods. Submitted. arXiv: 1512.05302

With Joseph Rusinko, Zoe Vernon, and Jing Xi: Modeling the distribution of distance data in Euclidean space. To appear in the AMS Contemporary Mathematics Series book Algebraic and Geometric Methods in Applied Discrete Mathematics.

With Pranjal Vachaspati, Siavash Mirarab, and Tandy Warnow: Phylogenomic species tree estimation in the presence of incomplete lineage sorting and horizontal gene transfer. RECOMB-Comparative Genomics 2015, and BMC Genomics, 2015.

With Jed Chou, Ashu Gupta, Shashank Yaduvanshi, Michael Nute, Siavash Mirarab and Tandy Warnow: A comparative study of SVDquartets and other coalescent-based species tree estimation methods. RECOMB-Comparative Genomics 2015, and BMC Genomics, 2015.

With Seth Sullivant: Distance-based phylogenetic methods around a polytomy. IEEE/ACM Transactions on Computational Biology and Bioinformatics 11 (2014), no. 1: 325-335. Associated Software.

With Patricia Hersh: "A lexicographic shellability characterization of geometric lattices" Journal of Combinatorial Theory, Series A 123 (2014), no. 1: 8-13.

With Seth Sullivant: "Polyhedral Combinatorics of UPGMA Cones" Advances in Applied Math 50 (2013), no. 2, 327-338. Supplementary Materials.

 

Teaching

Fall 2016

This Fall I'll be supervising three projects in the Illinois Geometry Lab. Please see the website for deadlines and project information.

Spring 2016

Here is a flyer advertising the graduate class "Polyhedra in the Wild" that I taught in Spring 2016, and the main course page.

I also supervised a project in the Illinois Geometry Lab titled "Discrete Morse Theory, Vector Fields, and Materials Science" that is continuing in the fall. Please see their website for information about applying to IGL projects, though emails asking me about my Fall 2016 projects are welcome.

Academic Family

In 2014, I received my Ph.D. from the Mathematics department at North Carolina State University under the supervision of Patricia Hersh and Seth Sullivant.

In 2009, I received my B.S. in Mathematics at the University of Washington, Seattle. My undergraduate thesis supervisor was Sara Billey.

In 2006, I received my A.A. from Seattle Central College, formerly known as Seattle Central Community College.

Organizing

With Elizabeth Drellich I am organizing a Minisymposium at the SIAM Conference on the Life Sciences , July 11-14 2016, Boston, MA

With Alex Yong and Laura Escobar Vega I am co-organizing the University of Illinois Algebra-Geometry-Combinatorics Seminar. In Fall 2016 we will meet Fridays 4-4:50 pm in a room TBA. Titles and Abstracts can be found here.

 

 

Confirmed Upcoming Activities and Travel Schedule

SIAM Conference on the Life Sciences July 11-14 2016 in Boston, MA, (joint with SIAM Annual Meeting 2016. )

Joint Mathematics Meetings January 4-7, 2017

Voy a ir a CIMAT durante la primavera 2017.

Selected Past Activities

Talks and Events : talks, actitivites and events I've organized, and other conferences and workshops I've attended.

(Some of) the Seminars I (try to) attend at UIUC

There are WAY too many good seminars here!

CS 591: Bioinformatics Seminar

Mathematical Biology Seminar

Algebraic Geometry Seminar

Systematics Discussion Group (no website): Fall 2016 Time and Place TBA- contact me (though I am not the leader--) if you want to participate in this reading group

PEEC seminar (School of Integrative Biology)

Graph Theory and Combinatorics Seminar

Algebra-Geometry-Combinatorics Seminar (co-organizer, see above)

Distribution of Distance Data Files