Research

Research Focus

Algebraic statistics with applications to evolutionary biology, systems biology, network science, and neuroscience.

Publications

 
 

Preprints

 

21. Dimensions of group-based phylogenetic mixtures, with Hector Banos, Nathaniel Bushek, Ruth Davidson, Pamela Harris, Robert Krone, Colby Long, Allen Stewart, and Robert Walker, 2017. Submitted. 

 

20. Identifiability of linear compartment models: the singular locus, with Nicolette Meshkat and Anne Shiu, 2017. Submitted. 

 

19. Phylogenetic trees, with Hector Banos, Nathaniel Bushek, Ruth Davidson, Pamela Harris, Robert Krone, Colby Long, Allen Stewart, and Robert Walker, 2016. arXiv:1611.05805. Submitted. 

 

18. Bertini for Macaulay2, with Daniel J. Bates, Anton Leykin, and Jose Israel Rodriguez, 2013,

arXiv:1310.3297. Submitted.

 

Peer-reviewed

 

17. Distinguishing phylogenetic networks, with Colby Long, 2017, SIAM Journal of Applied Algebra and Geometry, to appear.

 

16. Neural ideals and stimulus space visualization, with Elizabeth Gross, Nida Kazi Obatake, and Nora Youngs, 2017, Advances in Applied Mathematics, to appear. 

 

15. The maximum likelihood threshold of a graph, with Seth Sullivant, 2016, Bernoulli, to appear.

14. The multiple roots phenomenon in maximum likelihood estimation for factor analysis, with Sonja Petrovic, Donald Richards, and Despina Stasi, 2016, Proceedings of the Mathematical Society of Japan Seasonal Institute; the 50th Anniversary of Grobner Bases, to appear.

 

13. What makes a neural code convex?, with Carina Curto, Jack Jeffries, Katherine Morrison, Mohamed Omar, Zvi Rosen, Anne Shiu, and Nora Youngs, SIAM Journal of Applied Algebra and Geometry, Vol 1 (2017) 222-238.

 

12. Numerical algebraic geometry for model selection, with Brent Davis, Kenneth L. Ho, Daniel J. Bates, and Heather A. Harrington, 2016, Journal of the Royal Society Interface, Vol 13, No. 123 (2016), 20160256. Auxillary files.


11. Goodness-of-fit for log-linear network models: Dynamic Markov bases using hypergraphs, with Sonja Petrovic and Despina Stasi, 2016, Annals of the Institute of Statistical Mathematics, Vol 69, No. 3 (2017) 673--704.


10. Algebraic Systems Biology: A Case Study for the Wnt Pathway, with Heather A. Harrington, Zvi Rosen, and Bernd Sturmfels, Bulletin of Mathematical Biology, Vol 78 (2016), 21-51.


9. Maximum likelihood geometry in the presence of data zeros, with Jose Israel Rodriguez, Proceedings of the 39th International Symposium on Symbolic and Algebraic Computation (2014) 232-239.

8. Social Networks of Mobile Money, with Sibel Kusimba, Harpieth Chaggar, and Gabriel Kunyu, Working Paper (Report), Institute for Money, Technology, and Financial Inclusion (2013).

 

7. Combinatorial degree bound for toric ideals of hypergraphs, with Sonja Petrovic, International Journal of Algebra and Computation, Vol. 23 (2013) 1503-1520.


6. Interfacing with PHCpack, with Sonja Petrovic and Jan Verschelde, Journal of Software for Algebra and Geometry, Vol. 5 (2013) 20-25.


5. Maximum likelihoood degree of variance component models, with Mathias Drton and Sonja Petrovic, Electronic Journal of Statistics, Vol. 6 (2012) 993-1016.

 

4. A proof of the set-theoretic version of the salmon conjecture, with Shmuel Friedland, Journal of  Algebra, Vol. 356 (2012) no. 1, 374-379.

 

 

Articles

 

3. Discussing the Proof of the Global Attractor Conjecture, with Matthew Johnston and Nicolette Meshkat, SIAM News, July/August 2016.

 

 

Theses

 

2. Algebraic complexity in statistics using combinatorial and tensor methods. PhD thesis. University of Illinois at Chicago.

 

1. Modeling social networks using a random walk on a torus. Master's thesis. San Francisco State University.