Papers

1. Nonstationary open dynamical systems
   Submitted, 2019
   (with Brett Geiger)

2. Predictable tuning of gene circuit dynamics in a synthetic microbial consortium
   Submitted, 2019
   (with Razan N. Alnahhas, Matthew R. Bennett, Andrew J. Hirning, Krešimir Josić, Sara Molinari, Mehdi Sadeghpour, and David M. Zong)

3. Stochastic and coarse-grained two-dimensional modeling of directional particle movement [arXiv]
   Physica D, 2019
   (with Ilya Timofeyev and Thomas Weber)

4. Moran model of spatial alignment in microbial colonies [bioRxiv]
   Physica D, 2019
   (with Razan N. Alnahhas, Matthew R. Bennett, Krešimir Josić, Bhargav Karamched, and Ilya Timofeyev)

5. Bayesian inference of distributed time delay in transcriptional and translational regulation [bioRxiv]
   Bioinformatics, 2019
   (with Matthew R. Bennett, Yu-Yu Cheng, Boseung Choi, Selahittin Cinar, Krešimir Josić, and Jae Kyoung Kim)

6. Spatiotemporal dynamics of synthetic microbial consortia in microfluidic devices [bioRxiv]
   ACS Synthetic Biology, 2019
   (with Razan N. Alnahhas, Matthew R. Bennett, Andrew J. Hirning, Krešimir Josić, Bhargav Karamched, and James J. Winkle)

7. Predicting transcriptional output of synthetic multi-input promoters
   ACS Synthetic Biology, 2018
   (with Matthew R. Bennett, Selahittin Cinar, Krešimir Josić, David L. Shis, and David M. Zong)

8. Tuning the dynamic range of bacterial promoters regulated by ligand-inducible transcription factors
   Nature Communications, 2018
   (with Matthew R. Bennett, Ye Chen, Chinmaya Gupta, Joanne M. L. Ho, Krešimir Josić, James Long, David L. Shis, and Daniel S. Wagner)

9. Modeling mechanical interactions in growing populations of rod-shaped bacteria
   Physical Biology, 2017
   (with Matthew Bennett, Oleg Igoshin, Krešimir Josić, and James Winkle)

10. Large deviations for Gaussian diffusions with delay
    Journal of Statistical Physics, 2017
    (with Robert Azencott and Brett Geiger)

11. Effects of cell cycle noise on excitable gene circuits
    Physical Biology, 2016
    (with Matthew Bennett, Chinmaya Gupta, Krešimir Josić, and Alan Veliz-Cuba)

12. Synchronous recurrence, 2015
    (with Kamel Haddad and Ronnie Pavlov)

13. Observing Lyapunov exponents of infinite-dimensional dynamical systems
    Journal of Statistical Physics, 2015
    (with Mauricio Rivas and James West)

14. Timing and variability of galactose metabolic gene activation depend on the rate of environmental change
    PLoS Computational Biology, 2015
    (with Matthew Bennett, Chinmaya Gupta, Krešimir Josić, Bo Ma, and Truong D. Nguyen-Huu)

15. Homoclinic loops, heteroclinic cycles, and rank one dynamics
    SIAM Journal on Applied Dynamical Systems, 2015
    (with Anushaya Mohapatra)

16. Modeling delay in genetic networks: From delay birth-death processes to delay stochastic differential equations
    Journal of Chemical Physics, 2014
    (with Robert Azencott, Matthew Bennett, Chinmaya Gupta, Krešimir Josić, and José Manuel López)

17. One-sided shift spaces over infinite alphabets
    New York Journal of Mathematics Monographs, 2014
    (with Mark Tomforde and Paulette Willis)

18. Engineered temperature compensation in a synthetic genetic clock
    Proceedings of the National Academy of Sciences of the USA, 2014
    (with Matthew Bennett, Chinmaya Gupta, Andrew Hirning, Faiza Hussain, Krešimir Josić, and Kathleen Matthews)

19. Memory loss for nonequilibrium open dynamical systems
    Discrete and Continuous Dynamical Systems (Series A), 2014
    (with Anushaya Mohapatra)

20. Transcriptional delay stabilizes bistable gene networks (Supplement)
    Physical Review Letters, 2013
    (with Matthew Bennett, Chinmaya Gupta, Krešimir Josić, and José Manuel López)

21. Memory loss for time-dependent piecewise-expanding systems in higher dimension
    Mathematical Research Letters, 2013
    (with Chinmaya Gupta and Andrei Török)

22. Dissipative homoclinic loops of two-dimensional maps and strange attractors with one direction of instability
    Communications on Pure and Applied Mathematics, 2011
    (with Qiudong Wang)

23. Stochastic delay accelerates signaling in gene networks
    PLoS Computational Biology, 2011
    (with Matthew Bennett, Krešimir Josić, José Manuel López, and LieJune Shiau)

24. A Borel-Cantelli lemma for nonuniformly expanding dynamical systems
    Nonlinearity, 2010
    (with Chinmaya Gupta and Matthew Nicol)

25. From limit cycles to strange attractors
    Communications in Mathematical Physics, 2010
    (with Mikko Stenlund)

26. Observing infinite-dimensional dynamical systems
    SIAM Journal on Applied Dynamical Systems, 2010
    (with Jessica Lin)

27. Periodic attractors versus nonuniform expansion in singular limits of families of rank one maps
    Discrete and Continuous Dynamical Systems (Series A), 2010
    (with Qiudong Wang)

28. Memory loss for time-dependent dynamical systems
    Mathematical Research Letters, 2009
    (with Mikko Stenlund and Lai-Sang Young)

29. Recurrence in pairs
    Ergodic Theory and Dynamical Systems, 2008
    (with Kamel Haddad)

30. Strange attractors in periodically-kicked degenerate Hopf bifurcations
    Communications in Mathematical Physics, 2008

31. When Lyapunov exponents fail to exist
    Physical Review E, 2008
    (with James A. Yorke)

32. On a theorem of Shchepin and Repovš concerning the smoothness of compacta
    Topology and its Applications, 2007
    (with Ethan Akin)

33. The effect of projections on fractal sets and measures in Banach spaces
    Ergodic Theory and Dynamical Systems, 2006
    (with Brian Hunt and Vadim Kaloshin)

34. Prevalence
    Bulletin of the American Mathematical Society (New Series), 2005
    (with James A. Yorke)

35. Enveloping manifolds
    Topology and its Applications, 2004
    (with Michael Brin and James A. Yorke)

36. The global attractor associated with the viscous lake equations
    Nonlinearity, 2004

37. Learning about reality from observation
    SIAM Journal on Applied Dynamical Systems, 2003
    (with James A. Yorke)