Random Graphs

• Persistence of activity in random Boolean networks. With Shirhsendu Chatterjee.
• Chaos in a Spatial Epidemic Model With Daniel Remenik.
• Contact processes on random graphs with power law degree distributions have critical value 0. With Shirhsendu Chatterjee.
• Contact process on small worlds With Paul Jung.

Stochastic Spatial Models

• Coexistence in Stochastic Spatial Models. (Wald Lecture Paper)
• Coexistence in a particle system with seasons With Ben Chan and Nicolas Lanchier
• Coexistence in host-pathogen systems With Nicolas Lanchier
• On the width of hybrid zones.With Iljana Zahle.
• New coexistence result for competing contact processes With Ben Chan.
• Mutual invadability implies coexistence in spatial models. Memoirs of the AMS
• Pattern formation on planet WATORWith Simon Levin
• Stochastic Spatial Models. SIAM Review. 41 (1999), 677--718
• Silvertown's competition model With Simon Levin
• Abundance of species With Maury Bramson and Ted Cox.
• BiodiversityWith Linda Buttel and Simon Levin
• Colicin With Simon Levin
• Barley yellow dwarf virus With Claudia Neuhauser
• Species area curves With Simon Levin; With Maury Bramson and Ted Cox

Stepping Stone Model

• Two dimensions With Ted Cox; With Ted Cox and Iljana Zahle.
• Linkage disequilibrium, site frequency spectrum, etc. With Arkendra De.
• One dimensional stepping stone model With Mateo Restrepo.

Measure Valued Diffusions

• Rescaled contact processes converge to super-Brownian motion in two or more dimensions
  With Ed Perkins. Prob. Theor. Rel. Fields. 114 (1999), 309--399
• Rescaled voter models converge to super-Brownian motion.
  With Ted Cox and Ed Perkins. Ann. Prob. 28 (2000), 185--234
• Rescaled particle systems converging to super-Brownian motion.
  With Ted Cox and Ed Perkins. Pages 269--284 in Perplexing Problems in Probability: Festschrift in Honor of Harry Kesten edited by M. Bramson and R. Durrett, Birkhauser
• Competing super-Brownian motions as limits of interacting particle systems.
  With Leonid Mytnik, and Ed Perkins. Electronic Journal of Probability. 10 (2005), 1147--1220

Cancer

• Traveling waves of selective sweeps With John Mayberry.
• Evolution of resistance and progression to disease during clonal expansion of cancer. With Stephen Moseley.
• A waiting time problem arising from the study of multi-stage carcinogenesis With Deena Schmidt and Jason Schweinsberg

Genetics

• Regulatory sequence evolution. With Deena Schmidt. in humans * in Drosophila
• Fluctuating selection. With Emilia Huerta-Sanchez and Carlos Bustamante
• Wagner's Canalization Model With Emilia Huerta-Sanchez
• Approximating selective sweepsThree papers with Jason Schweinsberg
• Single nucleotide polymorphisms With Vlada Limic.
• A simple formula useful for positional cloning. With K.Y. Chen and Steve Tanksley. Genetics 160 (2002), 353-355
• Selective mapping strategies With Todd Vision, David Brown, David Shmoys, and Steve Tanksley.

Genome Rearrangement

• Survey article
  In Statistical Methods of Molecular Evolution, edited by R. Nielsen
• Chromosome size evolution With Arkedra De, Mike Ferguson, and Suzanne Sindi
• Shuffling chromosomes
• A phase transition With Nathanael Berestycki.
• Computing genomic midpoints With Yannet Interian

Rearrangement papers with Tom York and Rasmus Nielsen

• Estimating the number of inversions
• Estimating genomic distance
• Estimating genetic maps
• Inversion Tract Lengths

Gene Duplication

• Subfunctionalization With Rachel Ward
• Zinc finger genes With Deena Schmidt.
• Power laws for gene family sizes With Jason Schwweinsberg.
• Degenerate diffusion limits With Lea Popovic

Microsatellites

• KDSA model
  With Semyon Kruglyak, Malcolm Schug, and Chipa Aquadro. Proc. Nat. Acad. Sci. 95 (1998), 10774-10778
  With Semyon Kruglyak. J. Appl. Probab. 36 (1999), 621-631
• Microsatellites in yeast
  With Semyon Kruglyak, Malcolm Schug, and Chipa Aquadro. Mol. Biol. Evol. 17 (2000), 120-1219
• Dynamics of Microsatellite Divergence
  With Peter Calabrese and Chip Aquadro. Genetics 159 (2001), 839-852
• Microsatellites in Drosophilia and Humans
  With Peter Calabrese. Mol. Biol. Evol. 20 (2003), 715-725
• Estimates from comparing humans and chimps
  With Raaz Sainudiin, Chip Aquadro, and Rasmus Nielsen. Genetics. 168, 383-395