Lev S.Tsimring


Publications

4 monographs, ~190 peer-reviewed papers

ISI Web of Science: 13000+ citations, h-index: 54
Google Scholar: 22500+ citations, h-index: 71

Books

  1. L. Larson, J.-M. Liu, L.S. Tsimring, Lev S. (Eds.) Digital Communications Using Chaos and Nonlinear Dynamics. Springer, 382pp., 2006.
  2. I. Aranson, L. Tsimring. Granular Patterns. Oxford, 352pp., 2009.
  3. I.S. Aranson, A. Pikovsky, N.F. Rulkov, L.S. Tsimring (Eds.) Advances in Dynamics, Patterns, Cognition: Challenges in Complexity, 329pp., 2017.
  4. B. Munsky, W.S. Hlavacek, L.S. Tsimring (Eds.) Quantitative Biology: Theory, Computational Methods, and Models, 728pp., 2018.

Peer-reviewed papers

  1. L.A.Ostrovsky, L.Sh.Tsimring. Radiation instability of a shear flow in a stratified fluid. Izv. AN SSSR, Fiz. Atm. Okeana, 17 (1981), 766 [Engl. transl. Izvestiya, Atmos. Ocean Physics, 17 (1981) 564].
  2. L.Sh.Tsimring Destabilization of initially stable shear flow under the action of internal waves. Okeanologiya, 22 (1982) 540 [in Russian].
  3. L.Sh.Tsimring On induced scattering of surface water waves by wind. Izv. AN SSSR, Fiz. Atm. i Okeana, 19 (1983) n.1, 68.
  4. L.A.Ostrovsky, Yu.A.Stepanyants, L.Sh.Tsimring. The interaction of internal waves with flows and turbulence in the ocean. In: "Nelineinye volny. Samoorganizatsiya (Nonlinear waves. Self-organization", Moscow, Nauka (1983) 204 [in Russian].
  5. L.A.Ostrovsky, Yu.A.Stepanyants, L.Sh.Tsimring. Radiation instability in a stratified shear flow. Int.J.Non-Linear Mech., 19 n.2,151 (1983).
  6. A.V.Ivanov, L.A.Ostrovsky, I.A.Soustova, L.Sh.Tsimring. Interaction of internal waves and turbulence in the ocean. Dyn. Atmos. and Oceans, 7 (1983), n.4,221.
  7. A.Ya.Basovich, L.Sh.Tsimring. Internal waves in a horizontally inhomogeneous flow. J.Fluid Mech., 142 (1983) 233.
  8. L.A.Ostrovskii, Yu.A.Stepanyants, L.Sh.Tsimring. Internal solitons in the ocean: amplification, absorbtion, collective behavior. In: "Nonlinear and Turbulent Processes in Physics", vol.2, R.Z.Sagdeev (ed.), Harwood Acad.Press,N.-Y.,(1983) 933.
  9. S.I.Badulin, L.Sh.Tsimring and V.I.Shrira. Internal wave trapping and vertical focusing by horizontal inhomogeneities of stratification and flows. Sov.Physics - Doklady, 273 (1983).
  10. S.I.Badulin, V.I.Shrira, L.Sh.Tsimring. Trapping and vertical focusing of internal waves in the ocean. J.Fluid Mech., 158 (1985) 199.
  11. Yu.I.Nikolayeva, L.Sh.Tsimring. Kinetic model of surface wave generation by turbulent wind. Izv AN SSSR, Fiz. Atm. i Okeana, 22 (1986) n.2, 102 [Engl. transl Izvestiya, Atmos. and Ocean Phys., 22 (1986) n.2].
  12. B.E.Nemtsov, L.Sh.Tsimring. Evolution of initial disturbances at the interface between two immiscible flows. Preprint IPF AN SSSR #156, 1986, 30 pp [in Russian].
  13. L.Sh.Tsimring. On the theory of swell decay under opposing wind. Meteorologiya i Gydrologiya, (1986), n.11, 76 [in Russian].
  14. L.A.Ostrovsky, S.A.Rybak, L.Sh.Tsimring. Negative energy waves in hydrodynamics. Usp. Fiz. Nauk. 150 (1986), n.3, 417 [Engl. transl. Sov. Phys. Uspekhi, (1986) n.11, 1040].
  15. L.A.Ostrovsky, L.Sh.Tsimring. Turbulence front propagation in the shear flow. Izvestiya, Atmos.Ocean Physics, 24 (1988) n.6, 479.
  16. L.Sh.Tsimring. The formation of narrow angular spectrum of surface waves under nonlinear wind wave interaction. Izv. AN SSSR, Fiz. Atm. i Okeana, 25 (1989) 411 [Engl.transl. Izvestiya, Atmos. Ocean Physics, 25 (1989) n.4, 300].
  17. P.A.Matusov, L.A.Ostrovsky, L.Sh.Tsimring. The amplification of small-scale turbulence by internal waves. Sov.Phys. - Doklady, 307 (1989) n.4, 979.
  18. P.A.Matusov, L.Sh.Tsimring. The propagation of the front of parametrically excited capillary ripples. In: "Nonlinear Waves 3. Physics and Astrophysics. A.V.Gaponov-Grekhov, M.I.Rabinovich, and J.Engelbrecht (eds.). Springer-Verlag (1990) 98.
  19. I.S.Aranson, M.I.Rabinovich, L.Sh.Tsimring. Anomalous diffusion of particles in the regular fields. Phys.Letters, 151A (1990) 523.
  20. I.S.Aranson, A.B.Ezersky, M.I.Rabinovich, L.Sh.Tsimring. Impurity transport by the parametrically excited capillary ripples. Phys.Letters, 153A (1991) n.4,5, 211.
  21. E.I.Kolchina, L.Sh.Tsimring. Nonlinear theory of internal wave trapping in a horizontally inhomogeneous pycnocline. Izvestiya AN SSSR - Fizika Atmosf. i Okeana, 27 (1991) n.2, 215 (in Russian).
  22. A.L.Fabrikant, M.I.Rabinovich, L.Sh.Tsimring. Finite-dimensional spatial disorder. Uspekhi Fiz. Nauk, 162, 1 (1992).
  23. L.Korzinov, M.I.Rabinovich, L.S.Tsimring. Symmetry breaking in non-equilibrium systems: interaction of defects. Phys. Rev A, 46, 7601 (1992).
  24. L.S.Tsimring. Critical diffusion behavior of the climbing-sine map near the intermittency threshold, Physica D, 63, No.1-2, 41 (1993).
  25. L.S.Tsimring and P.A.E.M.Janssen. Transversal instability of a coupled wind-wave system at the initial stage of wave growth, J.Phys.Oceanogr., v.23, no.10, 2293-2296 (1993).
  26. H.D.I.Abarbanel, R.Brown, J.J.Sidorowich, and L.S.Tsimring. The analysis of observed chaotic data in physical systems, Rev.Mod.Phys., v.64, no.5, 1331-1393 (1993).
  27. L.S.Tsimring. Nested strange attractors in spatiotemporal chaotic systems, Phys. Rev. E, 48, n.5, 3421 (1993).
  28. M.I.Rabinovich and L.S.Tsimring. Dynamics of dislocations in hexagonal patterns, Phys. Rev. E, 49, n.1, R35 (1994),
  29. H.D.I.Abarbanel, T.Carroll, L.Pecora, J.J.Sidorowich, and L.S.Tsimring. Predicting physical variables in time delay embedding, Phys. Rev. E, 49, n.3, 1840 (1994).
  30. I.Aranson, H.Levine, L.Tsimring. Controlling spatiotemporal chaos. Phys. Rev. Lett., 72, n.16, 2561 (1994).
  31. L.S.Tsimring and M.I.Rabinovich. Dislocations in hexagonal patterns, in: Spatio-Temporal Patterns, Santa Fe Institute Studies in the Sciences of Complexity, Proceedings Vol. XXI, eds. P.E.Cladis and P.Palffy-Muhoray, Addison-Wesley, 1994.
  32. K.A.Gorshkov, L.N.Korzinov, M.I.Rabinovich, and L.S.Tsimring. Random pinning of localized states and the birth of deterministic disorder within gradient models, J. Statistical Physics, 74, no.5/6 (1994).
  33. M.M.Sushchik and L.S.Tsimring. The Eckhaus instability in hexagonal patterns, Physica D, 74, no.1-2, 90 (1994).
  34. N.F.Rulkov, L.S.Tsimring, H.D.I.Abarbanel. Tracking unstable orbits in chaos using dissipative feedback control, Phys. Rev. E, 50, n.1, 314-324 (1994).
  35. E.Ben-Jacob, I.Cohen, O.Shochet, I.S.Aranson, H.Levine, L.S.Tsimring, Complex bacterial patterns, Nature, 373, No.6515, 16 February (1995) 566.
  36. N.F.Rulkov, M.M.Sushchik, L.S.Tsimring, H.D.I.Abarbanel. Generalized synchronization of chaos in directionally coupled chaotic systems, Phys. Rev. E, 51 , n.2, 980-994 (1995).
  37. L.S.Tsimring. Penta-hepta defect motion in hexagonal patterns, Phys. Rev. Lett. 74 , n.21, 4201-4204 (1995).
  38. L.S.Tsimring, H.Levine, I.Aranson, E.Ben-Jacob, I.Cohen, O.Shochet, W.N.Reynolds. Aggregation patterns in stressed bacteria, 1995, Phys. Rev. Lett. 75 , 1859-1862 (1995).
  39. N.F.Rulkov, M.M.Sushchik, L.S.Tsimring, and H.D.I.Abarbanel. Nontrivial cases of synchronized chaotic oscillators, in: Proceedings of 1995 Intl. Symp. on Nonlinear Theory and Appl., IEEE, 1995, v.2, 937-940.
  40. M.M.Sushchik, N.F.Rulkov, L.S.Tsimring, and H.D.I.Abarbanel. Generalized synchronization of chaos in directionally coupled chaotic systems, in: Proceedings of 1995 Intl. Symp. on Nonlinear Theory and Appl., IEEE, 1995, v.2, 949-952.
  41. L.S.Tsimring. Dynamics of penta-hepta defects in hexagonal patterns, Physica D, 89 , 368-380 (1996).
  42. I.Aranson and L.Tsimring. Domain walls in wave patterns. Phys. Rev. Lett., 75 , 3273 (1995).
  43. I.Aranson, H.Levine and L.Tsimring. Spiral competition in three component excitable media, Phys. Rev. Letters., 76 , 1170 (1996).
  44. L.S.Tsimring and M.M.Sushchik. Multiplexing chaotic signals using synchronization, Physics Letters, 213 , 155-166 (1996).
  45. H.Levine, I.Aranson, L.Tsimring and T.Truong. Positive genetic feedback governs cAMP spiral wave formation in Dictyostelium, Proc. Natl. Acad. Sci. USA., 93, 6382-6386 (1996).
  46. L.S.Tsimring, H.Levine, and D.A.Kessler. RNA virus evolution via a fitness-space model, Phys. Rev. Letters, 76 , 4440-4443 (1996).
  47. S.V.Kiyashko, L.N.Korzinov, M.I.Rabinovich, and L.S.Tsimring. Rotating spirals in Faraday experiment, Phys. Rev. E , 54 , 5037-5040 (1996).
  48. J.Quer, R.Huerta, I.S.Novella, L.S.Tsimring, Domingo, J.J.Holland, Reproducible nonlinear population dynamics and critical points during replicative competitions of RNA virus quasispecies. J. Molecular Biology, 264, 465-471 (1996).
  49. D.A.Kessler, H.Levine, D.Ridgway, and L.S.Tsimring, Evolution on a smooth landscape, J. Stat. Physics, 87, N3-4, 519-544 (1997).
  50. I.Aranson, M.Assenheimer, V.Steinberg, and L.Tsimring. Large-scale flow and spiral core instability in Rayleigh-Benard Convection, Phys. Rev. E., Phys. Rev. E., 55, R4877 (1996).
  51. L.S.Tsimring and I.Aranson, Cellular and localized structures in a vibrated granular layer, Phys. Rev. Lett. v.79, n.1, 213-216 (1997).
  52. H.Levine, L.Tsimring, and D.A.Kessler. Computation modeling of mound development in Dictyostelium, Physica D, v.106, 375 (1997).
  53. C.Rhodes, M.Morari, N.F.Rulkov, and L.S.Tsimring. Data-based control trajectory planning algorithm in nonlinear systems, Phys. Rev. E , 56, 2398 (1997).
  54. I.Aranson, L.S.Tsimring, and V.Vinokur. Evolution on a rugged landscape: Pinning and Aging, Phys.Rev.Lett. v.79, 3298 (1997).
  55. L.S.Tsimring. Spiral dynamics in pattern-forming systems: mean flow effects, Physica A, v.249, 125 (1998).
  56. I. Aranson and L.S.Tsimring. Formation of periodic and localized patterns in an oscillating granular layer, Physica A, 249, 103 (1998).
  57. H.D.I.Abarbanel, T.W.Frison, and L.S.Tsimring. Obtaining Order in a World of Chaos. Time domain analysis of nonlinear and chaotic signals, IEEE Signal Processing Magazine, 15 , No.3, 49-65 (1998).
  58. I.Aranson, L.S.Tsimring, and V.Vinokur. Hexagons and interfaces in a vibrated granular layer, Phys. Rev. E, 59, R1327-R1330 (1999).
  59. I.Aranson, W. Kwok, G. Karapetrov, U. Welp, G. W. Crabtree, V.M. Vinokur and L.S. Tsimring. Controlled dynamics of interfaces in a vibrated granular layer, Phys. Rev. Lett., 82, 731 (1999)
  60. I.Aranson and L.S.Tsimring. Dynamics of axial separation in long rotating drums, Phys. Rev. Lett., 82, 4643 (1999)
  61. H.D.I.Abarbanel, N.F.Rulkov, L.S.Tsimring, M.I.Rabinovich, Chaotic communication apparatus and method for use with a wired or wireless transmission link, U.S.Patent 5,923,760, Jul. 13, 1999.
  62. I.Aranson, L.S.Tsimring, and V.Vinokur. Continuum theory of axial segregation in a long rotating drum, Phys. Rev. E, 60, 1975-1987 (1999).
  63. L.S.Tsimring, R.Ramaswamy, and P.Sherman. Dynamics of a shallow fluidized bed, Phys. Rev. E, 60, 7126-7130 (1999).
  64. N.F.Rulkov and L.S. Tsimring. Synchronization methods for communications with chaos over band-limited channel, Int. J. Circuit Theory Appl., 27, 555-567, 1999.
  65. A.R.Volkovskii and L.S.Tsimring. Synchronization and communication using chaotic frequency modulation, Int. J. Circuit Theory Appl., 27, 569-576, 1999.
  66. M.Sushchik, N.Rulkov, L.Larson, L. Tsimring, H.Abarbanel, K.Yao, and A.Volkovskii. Chaotic pulse modulation: a robust method of communication with chaos, IEEE Communication Letters, 4, 128-130 (2000).
  67. D. Blair, I. S. Aranson, G. W. Crabtree, V. Vinokur, L. S. Tsimring, and C. Josserand, Patterns in thin vibrated granular layers: Interfaces, hexagons, and superoscillons, Phys. Rev. E, 61, 5600 (2000).
  68. I.S.Aranson, B.A.Malomed, L.M.Pismen, and L.S.Tsimring. Crystallization Kinetics in the Swift--Hohenberg Model, Phys. Rev. E, 62, R5 (2000).
  69. M.Baer, M.Falcke, H.Levine, and L.S.Tsimring, Discrete stochastic modeling of calcium channel dynamics Phys. Rev. Lett., 84, 5664 (2000).
  70. M.Falcke, L.S.Tsimring, and H.Levine, Stochastic spreading of intracellular Ca release, Phys. Rev. E, 62, 2636 (2000).
  71. M.M. Sushchik, L.S. Tsimring, and A.R. Volkovskii, Performance Analysis of Correlation-Based Communication Schemes Utilizing Chaos, IEEE Trans. Circuits and Systems, I, 47, 1684 (2000).
  72. A.M.Delprato, A.Samadani, A.Kudrolli, and L.S. Tsimring, Swarming ring patterns in bacterial colonies exposed to ultraviolet radiation, Phys.Rev.Lett., 87, 158102 (2001)..
  73. I.S.Aranson and L.S.Tsimring, Continuum description of avalanches in granular media, Phys.Rev. E, 64, 020301 (2001).
  74. H.D.I.Abarbanel, L.E.Larson, N.F.Rulkov, M.M.Sushchik, L.S.Tsimring, and A.R.Volkovskii, Chaotic carrier pulse position modulation communication system and method, U.S. Patent # 06310906, Oct.30, 2001.
  75. L.S.Tsimring and A.S.Pikovsky, Noise-induced dynamics in bistable systems with delay, Phys.Rev.Lett., 87, 250602 (2001).
  76. D.K.Clark, L.S. Tsimring, and I.S.Aranson, Oscillations and defect turbulence in a shallow fluidized bed, nlin.PS/0005010.
  77. I.S.Aranson, L.S.Tsimring, and V.M.Vinokur, Stick-slip friction and nucleation dynamics of ultra-thin liquid films, Phys. Rev. B, 65, 125402 (2002).
  78. N.F.Rulkov, M.M.Sushchik, L.S.Tsimring and A.R.Volkovskii. Digital Communication Using Chaotic Pulse Position Modulation, IEEE Trans. Circ. Syst. -- I, 48, 1436 (2001).
  79. P. Seliger, S.C. Young, and L.S. Tsimring, Plasticity and learning in a network of coupled phase oscillators, Phys. Rev. E, 65, 041906 (2002).
  80. H.D.I.Abarbanel, J.U.Lemke, L.S.Tsimring, L.M.Korzinov, P.H.Bryant, M.M.Sushchik, N.F.Rulkov, Multilevel signal equalization utilizing nonlinear maps, U.S. Patent \# 6381083, Apr. 30, 2002.
  81. F. T. Arecchi, R. Meucci, E. Allaria, A. Di Garbo, and L. S. Tsimring, Delayed self-synchronization in homoclinic chaos, Phys. Rev. E 65, 046237 (2002).
  82. I.S.Aranson and L.S.Tsimring, Continuum theory of partially fluidized granular flows, Phys. Rev. E, 65, 061303 (2002).
  83. R.Huerta and L.S.Tsimring, Contact tracing and epidemics control in social networks, Phys. Rev. E 66, 056115 (2002).
  84. I.S.Aranson and L.S.Tsimring. Formation of longitudinal structures in granular flows, cond-mat/0203189.
  85. P.Seliger, L.S.Tsimring, M.I.Rabinovich, Dynamical model of sequential spatial memory: winnerless competition of patterns, Phys. Rev. E, 67, 011905 (2003).
  86. R.Tenny, L.S.Tsimring, L.Larson, H.D.I.Abarbanel, Using distributed dynamics for public key encryption, Phys. Rev. Letters, 90, 047903 (2003).
  87. I.S.Aranson and L.S.Tsimring. Model of coarsening and vortex formation in vibrated granular rods, cond-mat/0203237, Phys. Rev. E, 67, 021305 (2003)
  88. F. T. Arecchi, R. Meucci, E. Allaria, A. Di Garbo, and L. S. Tsimring, Self-delayed synchronization and analogies with long term memories. Proc. SPIE, vol.4829, pp.462-463 (2003).
  89. J.Li, I.S.Aranson, W.-K.Kwok, and L.S.Tsimring. Periodic and disordered structures in modulated gas-driven granular layer Phys. Rev. Letters, 90, 134301 (2003)
  90. I.S.Aranson and L.S.Tsimring. Dynamics of the constrained polymer collapse, Europhysics Letters, 62(6), 848-854 (2003).
  91. L.S.Tsimring and R.Huerta. Modeling of contact tracing in social networks, Physica A, 325 33-39 (2003).
  92. D.Volfson, L.S.Tsimring and I.S.Aranson, Order parameter description of stationary partially fluidized shear granular flows, Phys. Rev. Lett. 90, 254301 (2003).
  93. B.E. Martinez-Zerega, A.N. Pisarchik, and L.S. Tsimring, Using periodic modulation to control coexisting attractors induced by delayed feedback, Phys. Letters A 318, 102-111 (2003).
  94. D.Volfson, L.S.Tsimring and I.S.Aranson, Partially fluidized shear granular flows: MD simulations and continuum theory, Phys. Rev. E, 68 021301 (2003).
  95. D.Huber and L.S.Tsimring, Dynamics of an ensemble of noisy bistable elements with global time delayed coupling, Phys. Rev. Lett., 91, 260601 (2003).
  96. R.Tenny and L.S.Tsimring, Steps towards quantifying cryptanalysis of chaotic active/passive decomposition encryption schemes using average dynamics estimation, Int. J. Bifurc. and Chaos, 14, 3949-3968 (2004)
  97. D.Volfson, L.S.Tsimring and I.S.Aranson, Stick-slip dynamics of a granular layer under shear, Phys. Rev. E, 69, 031302 (2004).
  98. L.S.Tsimring, Avalanches. Encyclopedia of Nonlinear Science, ed. Alwyn Scott. New York and London: Routledge, 2004.
  99. D.Huber and L.S.Tsimring, Dynamics in a bistable-element network with delayed coupling and local noise, AIP Conf. Proceeding, vol. 708, issue 1, pp.448-449 (2004).
  100. D.Volfson, L.S.Tsimring and A.Kudrolli, Anisotropy driven dynamics in vibrated granular rods, Phys. Rev. E, 70, 051312 (2004).
  101. T.Lu, D.Volfson, L.S.Tsimring, and J.Hasty, Cellular growth and division in the Gillespie algorithm, IEE Systems Biology, 1, 121 (2004).
  102. M.Gabbay, M.L.Larsen, L.S. Tsimring, Globally coupled noisy oscillators with inhomogeneous periodic forcing, Phys. Rev. E, Phys. Rev. E 70, 066212 (2004)
  103. M. Gabbay, M. Larsen, L.S. Tsimring, Phased array beamforming using nonlinear oscillators, Proc. SPIE, vol. 5559, pp. 146-155 (2004).
  104. R.Tenny and L.S.Tsimring, Additive mixing modulation for public key encryption based on distributed dynamics, IEEE Transactions on Circuits and Systems - I, 52, 672-679 (2004).
  105. D.Huber and L.S.Tsimring, Cooperative dynamics in a network of stochastic elements with delayed feedback, Phys. Rev. E, 71, 036150 (2005).
  106. I.S.Aranson, L.S. Tsimring, Pattern formation of microtubules and motors: inelastic interaction of polar rods, Phys. Rev. E, 71, 050901 (2005).
  107. D.A.Bratsun, D.N.Volfson, J.Hasty, and L.S. Tsimring. Non-Markovian Processes in Gene Regulation, Proceedings of SPIE vol. 5845, pp. 210-219 (2005).
  108. L.S. Tsimring, N.F.Rulkov, M.L.Larsen, M.Gabbay Repulsive synchronization in an array of phase oscillators, Phys. Rev. Lett., 95, 014101 (2005).
  109. L.S. Tsimring and D. Volfson. Modeling of impact cratering in granular media, Proceedings of 'Powders and Grains - 2005', Balkema, Rotterdam, 2005, v.2, pp.1215-1223.
  110. A.R.Volkovskii, L.S.Tsimring, N.F.Rulkov, and I. Langmore, Spread Spectrum Communication System with Chaotic Frequency Modulation, Chaos, 15, 033101 (2005).
  111. S.Dorbolo, D.Volfson, L.Tsimring, A.Kudrolli, Dynamics of a bouncing dimer, Phys. Rev. Lett., 95, 044101 (2005).
  112. D.A. Bratsun, D.N. Volfson, L.S. Tsimring, and J. Hasty. Delay-induced stochastic oscillations in gene regulation, Proc. Natl. Acad. Sci., 102, no.41, 14593-12598 2005).
  113. I. S. Aranson and L. S. Tsimring. Continuum modeling of granular flow and structure formation. In: ``The Physics of Granular Media", H. Hinrichsen and D. E. Wolf (eds.), Wiley, 2005, pp. 143-164.
  114. A. S. Kuznetsov, V. D. Shalfeev, and L. S. Tsimring. Regularization of dynamics in an ensemble of nondiffusively coupled chaotic elements. Phys. Rev. E 72, 046209 (2005)
  115. D. Volfson, J. Marciniak, W.J. Blake, N. Ostroff, L.S. Tsimring, and J. Hasty, Origins of extrinsic variability in eukaryotic gene expression, Nature, 439, 861-864 (16 Feb 2006). Here is Supplementary information
  116. I.S.Aranson and L.S. Tsimring. Patterns and collective behavior in granular media: Theoretical concepts, Rev. Mod. Phys., 78, 641-692 (2006).
  117. D. Volfson, B. Meerson, L. S. Tsimring. Thermal collapse of a granular gas under gravity, Phys. Rev. E, 73, 061305 (2006).
  118. L. Larson, J.-M. Liu, L.S. Tsimring (Eds.) Digital Communications using Chaos. Springer, 370pp., 2006.
  119. L. S. Tsimring, D. Volfson, J. Hasty. Modeling stochastically driven genetic circuits, Chaos, 16, 026103 (2006).
  120. I.S.Aranson and L.S. Tsimring. Theory of self-assembly of microtubules and motors. Phys. Rev. E, 74, 031915 (2006).
  121. N.F. Rulkov, L. S. Tsimring, M.L. Larsen, M. Gabbay. Synchronization and beam-forming in array of repulsively coupled oscillators. Phys. Rev. E, 74, 056205 (2006).
  122. M. Bennett, D. Volfson, L. S. Tsimring, and J. Hasty. Transient dynamics of genetic regulatory networks, Biophysical Journal, 92, 3501-3512 (2007)
  123. I. S. Aranson, D. Volfson, L. S. Tsimring. Swirling motion in a system of vibrated elongated particles, Phys. Rev. E, 75, 051301 (2007).
  124. D. Karpeev, I. S. Aranson, L. S. Tsimring, and H. Kaper. Interactions of semiflexible filaments and molecular motors. Phys. Rev. E, 76, 051905 (2007).
  125. F. Ziebert, I.S. Aranson, L.S. Tsimring, Effects of crosslinks on motor-mediated filament organization, New J. Phys., 9 421 (2007).
  126. A. Mangeney, L. S. Tsimring, D. Volfson, I. S. Aranson, and F. Bouchut, Avalanche mobility iduced by the presence of an erodible bed and associated entrainment, Geophysical Research Letters, 34, L22401 (2007).
  127. A. Kudrolli, G. Lumay, D. Volfson and L. S. Tsimring. Swarming and swirling in self-propelled polar granular rods, Phys. Rev. Lett. 100, 058001 (2008).
  128. B. Fernandez and L. S. Tsimring, Athermal dynamics of strongly coupled stochastic three-state oscillators. Phys. Rev. Lett, 100, 165705 (2008).
  129. M. R. Bennett, W. L. Pang, N. A. Ostroff, B. L. Baumgartner, S. Nayak, L. S. Tsimring, J. Hasty. Metabolic gene regulation in a dynamically changing environment, Nature, 454, 1119-1122 (2008).. See also News and Views
  130. D. Volfson, S. Cookson, J. Hasty, L. S. Tsimring, Biomechanical ordering of dense bacterial populations, Proc. Natl. Acad. Sci. USA, 105, no. 40, 15346-15351 (2008); see also Supporting Information and UCSD press release
  131. J. Stricker, S. Cookson, M. Bennett, W. Mather, L. S. Tsimring, J. Hasty. A robust and tunable synthetic gene oscillator. Nature, 456(7221):516-9 (2008).
  132. I. S. Aranson, L. S. Tsimring, F. Malloggi, E. Clement, Nonlocal rheological properties of granular flows near a jamming limit. Phys. Rev. E, 78 031303 (2008).
  133. W. Mather, M. R. Bennett, J. Hasty, L. S. Tsimring, Delay-induced degrade-and-fire oscillations in small genetic circuits, Phys. Rev. Lett., 102, 068105 (2009). Supplementary Information.
  134. M.F. Melhus, I.S. Aranson, D.Volfson, L.S. Tsimring, Effect of noise on solid-to-liquid transition in small granular systems under shear, Phys. Rev. E, 80, 041305 (2009).
  135. D. Longo, A. Hoffmann, L. S. Tsimring, J. Hasty. Coherent activation of a synthetic mammalian gene network. Systems and Synthetic Biology, 4, 15-23 (2009).
  136. N. Cookson, L. S. Tsimring, J. Hasty. The pedestrian watchmaker: Genetic clocks from engineered oscillators. FEBS Letters, 583, 3931-3937 (2009)
  137. N. Cookson, S. Cookson, L. S. Tsimring, J. Hasty. Cell cycle-dependent variations in protein concentration. Nucleic Acids Research, 1-6 (2009).
  138. T. Danino, O. Mondragon-Palomina, L. S. Tsimring, J. Hasty. A synchronized quorum of genetic clocks, Nature 463, 326-330 (21 January 2010).
  139. W. Mather, O. Mondragon-Palomino, T. Danino, J. Hasty L. S. Tsimring. Streaming instability in growing cell populations, Phys. Rev. Lett., 104, 208101 (2010)
  140. W. Mather, N. A. Cookson, J. M. Hasty, L. S. Tsimring , and R. J. Williams. Correlation resonance generated by coupled enzymatic processing. Biophys. J., 99, 3172-3181 (2010).
  141. D. Boyer, W. Mather, O. Mondragon-Palomino, S. Orozco-Fuentes, T. Danino, J. Hasty, and L. S. Tsimring. Buckling instability in ordered bacterial colonies. Phys. Biol., 8 026008 (2011).
  142. W. H. Mather, J. Hasty, L. S. Tsimring and R. J. Williams, Factorized time-dependent distributions for certain multiclass queueing networks and an application to enzymatic processing networks, Queueing Systems, 69, 313-328 (2011), doi: 10.1007/s11134-011-9216-3
  143. T. Danino, D. Volfson, S. N. Bhatia, L. Tsimring, J. Hasty. In-silico patterning of vascular mesenchymal cells in three dimensions, PLoS ONE 6(5), e20182 (2011); doi:10.1371/journal.pone.0020182
  144. O. Mondragon-Palomino, T. Danino, J. Selimkhanov, L. Tsimring, J. Hasty. Entrainment of a population of synthetic genetic oscillators, Science, 333(6047), 1315-1319, 2011.
  145. B. Fernandez and L. S. Tsimring. Co-repressive interaction and clustering of degrade-and-fire oscillators, Phys. Rev. E, 84, 051916 (2011) (Erratum)
  146. N. Cookson, W. Mather, T. Danino, O. Mondragon-Palamino, R. Williams , L. Tsimring, J. Hasty. Queueing up for enzymatic processing: Correlated signaling through coupled degradation, Molecular Systems Biology, 20 December, 2011, doi:10.1038/msb.2011.94
  147. B. Baumgartner, M. Bennett, T. Johnson, L. S. Tsimring, J. Hasty. Antagonistic gene transcripts regulate adaptation to new growth environments, PNAS, 108, 21087-21092 (2011).
  148. J. Selimkhanov, J. Hasty, L. S. Tsimring. Recent advances in single-cell studies of gene regulation. Curr. Opin. Biotech., 23(1), 34-40 (2012).
  149. A. Prindle, P. Samayoa, I. Razinkov, T. Danino, L. Tsimring, J. Hasty. Sensing array of radically coupled genetic biopixels, Nature, 481, 39-44, January 2012.
  150. W. H. Mather, J. Hasty, L. S. Tsimring. Fast stochastic algorithm for simulating evolutionary population dynamics. Bioinformatics, doi:10.1093/bioinformatics/bts130, March 2012.
  151. C. W.Harwey, M. Alber, L. S. Tsimring, I. S. Aranson. Continuum modeling of clustering of myxobacteria. New J. Phys. 15 (2013) 035029.
  152. M. Kolnik, L.S. Tsimring, J. Hasty. Vacuum-assisted cell loading enables shear-free mammalian microfluidic culture. Lab on a chip 12 (22), 4732-4737
  153. W. H. Mather, J. Hasty, L. S. Tsimring, and R. J. Williams. Translational crosstalk in gene networks. Biophys. J., 104(11), 2564-2572 (2013).
  154. I. Razinkov, B. Baumgartner, M. Bennett, L. Tsimring, J. Hasty. Measuring Competitive Fitness in Dynamic Environments, J. Phys. Chemistry B, 117 (42), 13175-13181 (2013).
  155. B. Fernandez and L. S. Tsimring. Typical trajectories of coupled degrade-and-fire oscillators: From dispersed populations to massive clustering. J. Math. Biol., 68(7): 1627-1652 (2014).
  156. D.M. Longo, J. Selimkhanov, J.D. Kearns, J. Hasty, A. Hoffmann, L.S. Tsimring. Dual delayed feedback provides sensitivity and robustness to the NF-kB signaling module. PLoS Comput. Biol. 9(6): e1003112. doi:10.1371/journal.pcbi.1003112 (2013).
  157. L. S. Tsimring. Noise in Biology, Rep. Progr. Phys., 77 (2014) 026601
  158. A. Prindle, J. Selimkhanov, H. Li, I. Razinkov, L. S. Tsimring and J. Hasty. Rapid and tunable post-translational coupling of genetic circuits. Nature, April 9, 2014, doi:10.1038/nature13238
  159. W. Mather, J. Hasty, L. S. Tsimring. Synchronization of degrade-and-fire oscillations via a common activator, Phys. Rev. Lett., 113, 128102 (2014).
  160. J. Selimkhanov, B. Taylor, J. Yao, A. Pilko, J. Albeck, A. Hoffmann, L. Tsimring, R. Wollman. Accurate information transmission through dynamic biochemical signaling networks, Science, 346(6215), 1370-1373 (2014).
  161. J.C. Davis-Turak, K. Allison, M.N. Shokhirev, P. Ponomarenko, L.S. Tsimring, C.K. Glass, T.L. Johnson, A. Hoffmann. Considering the kinetics of mRNA synthesis in the analysis of the genome and epigenome reveals determinants of co-transcriptional splicing, Nucleic Acids Research, 43(2) 699-707 (2015)
  162. A. Didovyk, O.I. Kanakov, M. V. Ivanchenko, J. Hasty, R. Huerta, L. Tsimring. Distributed classifier based on genetically engineered bacterial cell cultures, ACS Synthetic Biology, 4(1):72-82 (2015).
  163. O.I. Kanakov, R. Kotelnikov, Ahmed Alsaedi, L. Tsimring, R. Huerta, A. Zaikin, M. Ivanchenko. Multi-input distributed classifiers for synthetic genetic circuits, PLoS ONE, 10(5):e0125144 (2015).
  164. M. D. Hardy, J. Yang, J. Selimkhanov, C. M. Cole, L. S. Tsimring, and N. K. Devaraj. Self-reproducing catalyst drives repeated phospholipid synthesis and membrane growth. PNAS, 112(27), 8187-8192 (2015).
  165. A. Didovyk, B. Borek, J. Hasty, L. Tsimring. Orthogonal modular gene repression in Escherichia coli using engineered CRISPR/Cas9. ACS Synthetic Biology, 5, 81-88 (2016). Supporting Information
  166. O.Kanakov, T.Laptyeva, L.Tsimring, M.Ivanchenko. Spatiotemporal dynamics of distributed synthetic genetic circuits. Physica D, 318-319, 116-123 (2016)
  167. B. Borek, J. Hasty, and L. Tsimring. Turing patterning using gene circuits with gas-induced degradation of quorum sensing molecules. PLoS ONE, 11(5), e0153679 (2016)
  168. M.O. Din, T. Danino, A. Prindle, M. Skalak, J. Selimkhanov, K. Allen, E. Julio, E. Atolia, L.S. Tsimring, S.N. Bhatia, J. Hasty. Synchronized cycles of bacterial lysis for in vivo delivery, Nature, 536, 81-85 (2016)
  169. A. Didovyk, B. Borek, L. Tsimring, J. Hasty. Transcriptional regulation with CRISPR-Cas9: Principles, advances, and applications, Curr. Opin. Biotech., 40, 177-184 (2016)
  170. P. J. Steiner, R. J. Williams, J. Hasty, L. S. Tsimring. Criticality and adaptivity in enzymatic networks, Biophysical Journal, 111, 10787-1087 (2016). Supplementary information.
  171. P. Bittihn, J. Hasty, and L. Tsimring. Suppression of beneficial mutations in dynamic microbial populations, Phys. Rev. Lett., 118, 028102 (2017).
  172. J. Humphries, L. Xiong, J. Liu, A. Prindle, F. Yuan, H. A. Arjes, L. Tsimring, and G. M. Suel. Species-Independent Attraction to biofilms through electrical signaling, Cell, 168(1-2), 200-209 (2017).
  173. A. Didovyk and L. S. Tsimring. Synthetic gene circuits learn to classify, Cell Systems, 4(2), 151-153 (2017).
  174. A. Didovyk, T. Tonooka, L. S. Tsimring, and J. Hasty. Rapid and scalable preparation of bacterial lysates for cell-free gene expression, ACS Synthetic Biology, 6(12):2198-2208 (2017), doi: 10.1021/acssynbio.7b00253.
  175. Y. Jiang, Z. AkhavanAghdam, L.S. Tsimring, N. Hao. Coupled feedback loops control the stimulus-dependent dynamics of the yeast transcription factor Msn2. J. Biological Chemistry 292 (30), 12366-12372 (2017).
  176. P. Bittihn and L. S. Tsimring. Gene conversion facilitates adaptive evolution on rugged fitness landscapes. Genetics, December 1, 2017 vol. 207 no. 4 1577-1589 Supplementary material
  177. R. Cooper, L. Tsimring. J. Hasty. Inter-species population dynamics enhance microbial horizontal gene transfer and spread of antibiotic resistance. eLife, 6:e25950, DOI: 10.7554/eLife.25950 (2017).
  178. Y. Li, M. Jin, R. O'Laughlin, P. Bittihn, L. S. Tsimring, L. Pillus, J. Hasty and N. Hao. Multigenerational silencing dynamics control cell aging. PNAS, 114 (42) 11253-11258 (2017).
  179. S. R. Scott, M.O. Din, P. Bittihn, L. Xiong, L. S. Tsimring, J. Hasty. A stabilized microbial ecosystem of self-limiting bacteria using synthetic quorum-regulated lysis. Nature Microbiology, 2: 17083 (2017).
  180. E. Khain and L.S. Tsimring. Effective pressure and cell area distribution in a confined monolayer. Fluid Dyn. Res. 50 (2018) 051413 (2018).
  181. P. Bittihn, M.O. Din, L.S. Tsimring and J. Hasty. Rational engineering of synthetic microbial systems: from single cells to consortia, Current Opinion in Microbiology 45:92-99 (2018).
  182. L. Xiong, R. Cooper and L.S. Tsimring. Coexistence and pattern formation in bacterial mixtures with contact-dependent killing. Biophysical Journal, 114(7): 1741-1750 (2018).
  183. B.L.Baumgartner, R.O'Laughlin, M.Jin, L.S.Tsimring, N.Hao, J.Hasty. Flavin-based metabolic cycles are integral features of growth and division in single yeast cells. Scientific reports 8 (1), 18045 (2019)
  184. M.Jin, Y.Li, R.O'Laughlin, P.Bittihn, L.Pillus, L.S.Tsimring, J.Hasty, N.Hao. Divergent aging of isogenic yeast cells revealed through single-cell phenotypic dynamics. Cell Systems, 8:1-12 (2019)
  185. M.J. Liao, M.O.Din, L.Tsimring, J. Hasty. Rock-paper-scissors: Engineered population dynamics increase genetic stability. Science, 365: 1045-1049 (2019)
  186. L Xiong, Y Cao, R Cooper, WJ Rappel, J Hasty, L Tsimring. Flower-like patterns in multi-species bacterial colonies. eLife, 9: 48885 (2020)
  187. P Bittihn, A Didovyk, LS Tsimring, J Hasty. Genetically engineered control of phenotypic structure in microbial colonies. Nature Microbiology 5, 697-705 (2020) [also bioRxiv, 575068 (2019)]
  188. Y.Li, Y.Jiang, J.Paxman, R.O'Laughlin, S.Klepin, Y.Zhu, L.Pillus, L.S.Tsimring, J.Hasty, N. Hao. A programmable fate decision landscape underlies single-cell aging in yeast. Science, 369(6501): 325-329 (2020).   Supplementary Material
  189. J. Paxman, Z. Zhou, R. O’Laughlin, Y. Li, W. Tian, H. Su, Y. Jiang, S.E. Holness, E. Stasiowski, L.S. Tsimring, L. Pillus, J. Hasty, N. Hao. Age-dependent aggregation of ribosomal RNA-binding proteins links deterioration in chromatin stability with loss of proteostasis. eLife 11:e75978 (2022).
  190. D. Schultz, M.Stevanovic and L. S. Tsimring. Optimal transcriptional regulation of dynamic bacterial responses to sudden drug exposures. Biophys. J. 121(21):4137-4152 (2022), bioRxiv 2020.09.14.297317. DOI: https://doi.org/10.1101/2020.09.14.297317
  191. A. Pikovsky and L. S. Tsimring. Statistical theory of asymmetric damage segregation in clonal cell populations. Mathematical Biosciences, 358:108980 (2023)
  192. Z. Zhou, Y. Liu, Y. Feng, S. Klepin, L.S. Tsimring, L. Pillus, J. Hasty, N. Hao. Engineering longevity—design of a synthetic gene oscillator to slow cellular aging, Science, 380(6643):376-381 (2023)
  193. B. Naigles, A. V. Narla, J. Soroczynski, L.S. Tsimring, N. Hao. Quantifying dynamic pro-inflammatory gene expression and heterogeneity in single macrophage cells, Journal of Biological Chemistry 299(10):105230 (2024).
  194. P. Steppe, C. Rey-Bedón, S. Kumar, E. Forrest, N. Van Der Wagt, A. Tayal, L. Tsimring, J. Hasty. Phenotypic Patterning through Copy Number Adaptation to Environmental Gradients, ACS Synthetic Biology, 13(3): 728-735 (2024)


October 2022