Curriculum Vitae

Ruriko Yoshida

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Duke University, Box 90320
Durham, NC 27708-0320
USA

(919) 660 - 2848 (office)

(email)

Education

PhD	University of California, Davis	2004
BA	University of California, Berkeley	2000

Areas of Research: Computational Algebraic Statistics, Computational Biology

Areas of Interest: Computational Biology
Computational Algebraic Statistics
Discrete Optimization

Areas of Experience: Polyhedral Geometry
Discrete Geometry
Combinatorial Phylogeny
Optimization
Algebraic Statistics
Algorithms in Algebra and Geometry

Professional Experience / Employment History

University of Kentucky: Assistant Professor, Department of Statistics, August 01, 2006 - present

Duke University: Assistant Research Professor, Department of Mathematics, September 01, 2004 - July 31, 2006

University of California, Berkeley

Postdoctoral Researcher, The Center for Pure and Applied Mathematics, June 17, 2004 - August 16, 2004

Worked with Lior Pachter, an associate professor at UC Berkeley.

Awards, Honors, and Distinctions: Summer Research Fellowship, Graduate Studies Office at University of California, Davis, August, 2003
Summer Research Fellowship, Graduate Studies Office at University of California, Davis, August, 2001

Conferences Organized: Program Committee, The 2nd International Conference on Algebraic Biology, July 2, 2007; Organizing and program committee, Algebraic Biology (AB2005), Computer Algebra in Biology, November 2005; Organizer, Integer Points In Polyhedra Geometry, Number Theory, Representation Theory Algebra, Optimization, Statistics, June 11, 2005

Professional Service: Referee, METRON -International Journal of Statistics, April, 2006; Paper reviews, Journal of Computational Biology, December 2005; Referee, The Journal of Symbolic Computation, June, 2004

Selected Recent Invited Talks: Barvinok's enumeration algorithm and its applications to Statistics, Cornell University, Statistics Department, October 04, 2006; Saturation points and holes in affine semigroups, Freie Universit\"at Berlin, Germany, July 06, 2006; A generalization of the integer linear infeasibility problem, Otto-von-Guericke University Magdeburg, Germany, June 29, 2006; Barvinok's enumeration algorithm and applications to Statistics, Institute of Statistical Mathematics, Tokyo, Japan, May 29, 2006 [available here]; Fundamental holes and saturation points of a commutative semigroup and their applications to contingency tables, San Francisco State University, CA, April 30, 2006 [html]; Fundamental holes and saturation points of a commutative semigroup and their applications to contingency tables, UC Davis, CA, April 28, 2006; The Generalized Neighbor Joining Method, Colloquium at Washington State University, February 16, 2006; Maximum likelihood estimation of phylogenetic tree and substitution rates, Mathematical Colloquium, Colorado State University, February 01, 2006 [html]; Maximum likelihood estimation of phylogenetic tree and substitution rates, Computational Biology Seminar, Duke University, January 30, 2006; The generalized neighbor joining method, North Carolina State University, January 26, 2006 [available here]; Applications of Short Rational Functions to Solving Integer Programming Problems, The OR colloquium at UNC, January 25, 2006 [or_colloquia]; Maximum likelihood estimation of phylogenetic tree and substitution rates, The department of Statistics, University of Kentucky, 2006/01/20 [html]; Indispensable monomials of toric ideals and Markov bases, San Antonio, Texas, January 12, 2006 [html]; Maximum likelihood estimation of phylogenetic tree and substitution rates via generalized neighbor-joining and the EM algorithm, 28 November 2005 [available here]; Neighbor-Joining with Interval Methods, Statistical and Applied Mathematical Sciences Institute, NC, June 13, 2005 [html]; Applications of Short Rational Functions to Solving Integer Programming Problems, Tokyo University, Tokyo Japan, May 25, 2005 [html]; Neighbor Joining with Subtree Weights, Statistical Genetics and Bioinformatics, NCSU, NC, December 07, 2004 [php]; Short Rational Functions for Toric Algebra and Applications, Mathematics Department, North Carolina State University, NC, September 01, 2004 [html]; Neighbor-Joining with Subtree Weights, Institute of Statistics and Decision Sciences, August 30, 2004 [available here]; Barvinok's Enumeration Algorithm and Applications to Statistics, Computational Algebraic Statistics, American Institution of Mathematics, Palo Alto, CA, 17 December 2003 [html]; Software for Lattice point Enumeration, Mathematical Sciences Research Institution, Berkeley, CA, September 15, 2003 [show_program]; Barvinok's enumeration algorithm and applications to Statistics, Snowbird, Utah, July 16, 2003 [html]; Variations on Barvinok's counting algorithm and applications to multiway contingency tables, Statistical and Applied Mathematical Sciences Institution, NC, June 28, 2003 [html]; LattE: Software for effective lattice point Enumeration, Statistique et Traitement Informatique des Donn\'ees in Menton, France, February 20, 2003 [available here]; LattE: Lattice point enumeration and multiway contingency tables, University of California, Berkeley, January 16, 2003 [available here]

Publications (listed separately)

Last modified: 2006/10/13

dept@math.duke.edu
ph: 919.660.2800
fax: 919.660.2821

Mathematics Department
Duke University, Box 90320
Durham, NC 27708-0320

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