Publications

Natalia L Komarova

Books

Wodarz, D and Komarova, N.L. (2014) Cancer treatment in silico: small molecule inhibitors and oncolytic viruses. Birkhauser.

Komarova, N.L. and Wodarz, D. (2013) Dynamics of cancer: mathematical foundations of oncology. World Scientific Publishing.

Wodarz, D. and Komarova. N.L. (2005) Computational Biology of Cancer: Lecture notes and mathematical modeling. World Scientific Publishing.

A.V. Korotaev, N.L. Komarova and D.A. Khaltourina (2006) The Laws of History. Century-long cycles and millennial trends. Demography, Economy, Wars. Moscow: URSS (in Russian).

Papers

2014

122. Wodarz, D., Chan, C., Trinite, B., Komarova, N.L. and Levy, D. (2014) On the laws of virus spread through cell populations. To appear in Journal of Virology.

121. Komarova, N.L., Burger, J.A., Wodarz, D. (2014) Evolution of ibrutinib resistance in chronic lymphocytic leukemia (CLL). Proceedings of the National Academy of Sciences.

120. Komarova, N. L. (2014). Spatial interactions and cooperation can change the speed of evolution of complex phenotypes. Proceedings of the National Academy of Sciences, 201400828.

119. Mandelshtam, Y. and Komarova, N.L. (2013) When learners surpass their models: mathematical modeling of learning from an inconsistent source. Bulletin of Math Bio.

118. Jackson, T.L., Komarova, N.L. and Swanson, K.R. (2014) Mathematical Oncology: Using Mathematics to Enable Cancer Discoveries. American Mathematical Monthly.

117. Wodarz, D., Garg, N., Komarova, N. L., Benjamini, O., Keating, M. J., Wierda, W. G., Kantarjian, H., James, D., O'Brien, S. & Burger, J. A. (2014). Kinetics of chronic lymphocytic leukemia (CLL) cells in tissues and blood during therapy with the BTK inhibitor ibrutinib. Blood, blood-2014.

116. Manem, V.S.K., M. Kohandel, M., Komarova, N.L., Sivaloganathan, S. (2014) Spatial invasion dynamics on random and unstructured meshes: Implications for heterogeneous tumor populations. Journal of Theor. Biol. 349, 66--73.

115. Wodarz, D., Sorace, R., and Komarova, N.L. (2014) Dynamics of cellular responses to radiation. PLoS Computational Biology , 10(4), e1003513.

114. Komarova, N.L., Shahriyari, L. and Wodarz, D. (2014) Complex role of space in the crossing of fitness valleys by asexual populations. Jour of the Roy Soc Interface, 11(95), 20140014.

113. Rodrigues-Brenes, I. A., Komarova, N.L., Wodarz, D. (2014) Cancer-associated mutations in healthy individuals: assessing the risk of carcinogenesis. Cancer Research, 74(6), 1661-1669.

2013

112. Shahriyari, L. and Komarova, N.L. (2013) Symmetric vs asymmetric stem cell divisions: an adaptation against cancer? PLoS One, 8: e76195.

111. Komarova, N.L. and Boland, C.R. (2013) Cancer: Calculated treatment. Nature 499, 291-292 ( News and Views article).

110. Komarova, N.L. (2013) Principles of regulation of self-renewing cell lineages. PLoS One 8(9), e72847.

109. Wodarz, D. and Komarova, N.L. (2013) Dependence of the firearm-related homicide rate on gun availability: a mathematical analysis. PLoS One 8(7), e71606.

108. Rodrigues-Brenes, I. A., Komarova, N.L., Wodarz, D. (2013) Tumor growth dynamics: insights into somatic evolutionary processes. Trends in Ecology and Evolution, 28: 597-604.

107. Komarova, N.L., Levy, D. and Wodarz, D. (2013) Synaptic transmission and the susceptibility of HIV infection to anti-viral drugs. Scientific Reports 3, 1--8.

106. Rodrigues-Brenes, I. A., Wodarz, D., Komarova, N.L. (2013) Minimizing the risk of cancer: tissue architecture and cellular replication limits. Jour Roy Soc Interface 10(86), 1--12.

105. Wodarz, D, Sun, Z., Lau, J.W., Komarova, N.L. (2013) Nearest neighbor interactions, habitat fragmentation, and the persistence of host-pathogen systems. The American Naturalist, 182(3), E94-E111.

104. Rodrigues-Brenes, I. A., Wodarz, D., Komarova, N.L. (2012) Stem cell control, oscillations and tissue regeneration in spatial and non-spatial models. Front. Oncol. 3:82.

103. Komarova, N.L., Wodarz, D. (2013) Virus dynamics in the presence of synaptic transmission. Math Biosci. 242(2), pp. 161--171.

102. Wodarz, D., Boland, C.R., Goel, A., Komarova, N.L. (2013) Methylation kinetics and CpG-island methylator phenotype status in colorectal cancer cell lines. Biology Direct. 8(1), 1--14.

101. Komarova, N.L. (2013) Spatial stochastic models of cancer: fitness, migration, invasion. Mathematical Biosciences and Engineering 10, pp. 761--775.

100. Komarova, N.L., Jameson, K.A. (2013) Quantitative theory of human color choices. PLoS One 8, e55986.

99. Komarova, N.L., Anghelina, D., Voznesensky, I., Trinite, B., Levy, D., Wodarz, D. (2013) Relative contribution of free virus and synaptic transmission to the spread of HIV through target cell populations. Biology Letters 9(1).

98. Sun, Z., Komarova, N.L. (2013) Stochastic control of proliferation and differentiation in stem cell dynamics. To appear in Jour. Math. Bio.

2012

97. Wodarz, D., Hofacre, A., Lau, J.W., Sun, Z., Fan, H., Komarova, N.L. (2012) Complex spatial dynamics of oncolytic viruses in vitro: mathematical and experimental approaches. PLoS Computational Biology, 8(6): e1002547.

96. Hofacre, A., Wodarz, D, Komarova, N.L., Fan, H. (2012) Early infection and spread of a conditionally replicating adenovirus under conditions of plaque formation. Virology 423(1), 89--96.

95. Thalhauser, C.J., Komarova, N.L. (2012) Alzheimer's disease: rapid and slow progression. Roy. Soc. of London Interface 9(66) 119-126.

94. Komarova, N.L. (2012) The spread of conventions and the search for the optimal strategy (Commentary). Religion, Brain & Behavior, 2, 1--4.

923. Narens, L., Jameson, K.A., Komarova, N.L. and Tauber, S. (2012) Language, Categorization, and convention. Advances in complex systems 15(3), 1150022-1--21.

92. Komarova, N.L. (2012) Axiomatic modeling in life sciences. In R. V. N. Melnik and A. V. Antoniouk, De Gruyter (eds.) Mathematics and Life Sciences , De Gruyter.

91. Komarova, N.L., Urwin, E., Wodarz, D. (2012) Accelerated crossing of fitness valleys through division of labor and cheating. Scientific Reports. 2:917.

90. Sorace, R., Komarova, N.L. (2012) Accumulation of neutral mutations in growing cell colonies with competition. Jour. of Theor. Biol. 314, 84-94.

89. Sun, Z., Komarova, N.L. (2012) Stochastic modeling of stem-cell dynamics with control. Math. Biosciences. 240(2), 231-240.

88. Komarova N.L., Levy D.N., Wodarz D. (2012) Effect of synaptic transmission on viral fitness in HIV infection. To appear in PLoS ONE.

2011

87. Komarova, N.L. (2011) ``Cancer initiation and progression, modeling''. Encyclopedia of Applied and Computational Mathematics. Springer.

86. Thalhauser, C.J., Komarova, N.L. (2011) Calculating stage duration statistics in multistage diseases. PLoS One 6(12): e28298.

85. Komarova, N.L., Thalhauser, C.J. (2011) High degree of heterogeneity in Alzheimer's disease progression patterns. PLoS Comput Biol 7(11): e1002251.

84. Komarova, N.L. (2011) ``Evolutionary rate''. Brenner's Online Encyclopedia of Genetics, edited by Stanley Maloy and Kelly Hughes, 2nd edition.

83. Rodrigues-Brenes, I. A., Komarova, N.L., Wodarz, D. (2011) Evolutionary dynamics of feedback escape and the development of stem-cell driven cancers. PNAS 108(47) 18983-18988.

82. Komarova. N.L.(2011) Mathematical modeling of cyclic treatments of chronic myeloid leukemia Math Biosci and Engineering 8(2): 289--306.

2010

81. Komarova, N.L. (2010) Modeling approaches to studying stem cells in cancer. In S.Sivaloganathan (ed.) New perspectives in mathematical biology (Fields Institute Communications), American Mathematical Society, Providence, Rhode Island.

80. Katouli, A.A., Komarova. N.L. (2010) Optimizing combination therapies with existing and future CML drugs. PLoS One 5(8):e12300.

79. Wan, F.M.Y., Sadovsky, A.V. and Komarova, N.L. (2010) Genetic Instability in Cancer: An Optimal Control Problem. Studies in Applied Mathematics 125 (1): 1 --38.

78. Thalhauser CJ, Komarova NL. (2010) Signal response sensitivity in the yeast mitogen-activated protein kinase cascade. PLoS One.

77. Thalhauser CJ, Lowengrub JS, Stupack D, Komarova NL. (2010) Selection in spatial stochastic models of cancer: migration as a key modulator of fitness. Biol Direct.

76. Katouli AA, Komarova NL. (2010) The Worst Drug Rule Revisited: Mathematical Modeling of Cyclic Cancer Treatments. Bull Math Biol.

75. Komarova NL, Levin SA. (2010) Eavesdropping and language dynamics. J Theor Biol. 264(1):104-18.

74. Komarova NL, Wodarz D.(2010) ODE models for oncolytic virus dynamics. J Theor Biol. 263(4):530-43.

2009

73. Komarova, N.L. (2009) Building mathematical models for drug treatment of cancer. T.S. Deisboeck & G. Stamatakos (eds.) Multiscale Cancer Modeling, Chapman & Hall.

72. Komarova, N.L., Katouli, A.A. & Wodarz, D. (2009) Combination of two but not three current targeted drugs can improve therapy of chronic myeloid leukemia. PLoS One 4(2):e4423.

71. Jaeger, H., A. Baronchelli, E. Briscoe, M. H. Christiansen, T. Griffiths, G. Jaeger, S. Kirby, N. Komarova, P. J. Richerson, L. Steels and J. Triesch. What can mathematical, computational and robotic models tell us about the origins of syntax? In D. Bickerton and E. Szathmary. (eds.), Biological Foundations and Origin of Syntax, Struengmann Forum Reports, vol. 3. Cambridge, MA: MIT Press. 2009.

70. Komarova, N.L. & Wodarz, D. (2009) Towards predictive computational models of oncolytic virus dynamics in vitro. PLoS One (1):e4271.

69. Komarova, N.L. & Wodarz, D. (2009) Combination therapies against chronic myeloid leukemia: short term versus long term strategies. Cancer Res. 69, 4904.

68. Boland, C.R., Komarova, N.L. & Goel, A. (2009) Chromosomal instability and cancer: not just one CINgle mechanism. Gut 58(2):163-4.

67. Thalhauser, C.J and Komarova, N.L. (2008) Specificity and robustness of the mammalian MAPK-IEG network. To appear in Biophys. Journ.

66. Jameson, K.A. & Komarova, N.L. (2009) Evolutionary models of color categorization. I. Population categorization systems based on normal and dichromat observers. Jour. Opt. Soc. Amer. 26, pp. 1414-1423.

65. Jameson, K.A. & Komarova, N.L. (2009) Evolutionary models of color categorization. II. Realistic observer models and population heterogeneity. Jour. Opt. Soc. Amer. 26, pp. 1424-1436 .

2008

64. Komarova, N.L. and Jameson, K.A. (2008) Population heterogeneity and color stimulus heterogeneity in agent-based color categorization. Jour. Theor. Biol. 253(4):680-700.

63. Komarova, N.L., Sadovsky, A.V. and Wan, F.M.Y. (2008) Selective pressures for and against genetic instability in cancer: a time-dependent problem. Jour. of the Royal Society Interface, 5(18): 105-21.

2007

62. Komarova, N.L. and Wodarz, D. (2007) Stochastic modeling of cellular colonies with quiescence: an application to drug resistance in cancer. Theor Popul Bio. 72(4):523-38.

61. Komarova, N.L. and Wodarz, D. (2007) Cancer as a microevolutionary process. To appear in Evolution in health and disease, 2nd edition, Oxford University Press (Ed: Stephen Stearns and Jacob Koella).

60. Komarova, N.L., Wodarz, D., Boland, C.R. & Goel, A. (2007) Genetic and epigenetic pathways to colon cancer: relating experimental evidence with modeling. To appear in Nicola Bellomo, Mark Chaplain, and Elena De Angelis (Eds), Selected topics on cancer modeling: genesis - evolution - immune competition - therapy. Birkhauser, Boston.

59. Komarova, N.L. (2007) Stochastic Modelling of Loss- and Gain-of-Function Mutations in Cancer. To appear in Mathematical Models and Methods in Applied Sciences 17S: 1647-1773.

58. Komarova, N.L. (2007) Loss- and gain-of-function mutations in cancer: mass-action, spatial and hierarchical models. Jour. Stat. Phys. 128, pp. 413-446.

57. Wodarz, D. and Komarova, N.L. (2007) Can loss of apoptosis protect against cancer? Trends in Genetics 23(5), pp. 232-7.

56. Komarova, N.L., Baldi, P. and Wu, L. (2007) The fixed-size Luria-Delbruck model with a nonzero death rate. Math. Biosciences 210(1):253-90.

55. Komarova, N.L., Zou, X., Nie, Q. & Bardwell, L. (2007) Mathematical Models of Specificity in Cell Signaling. Biophys Jour. 92(10), pp. 3425-41

54. Komarova, N.L., Jameson, K.A. and Narens, L. (2007) Evolutionary models of color categorization based on discrimination. Journal of Math Psychology 51(6):359--382.

53. Komarova, N.L. and Wodarz, D. (2007) Effect of cellular quiescence on the success of targeted CML therapy. PloS ONE, 2(10):e990.

52. Komarova NL. (2007) Viral reproductive strategies: How can lytic viruses be evolutionarily competitive? Jour Theor Biol. 249(4):766-84.

2006

51. Komarova, N.L. (2006) Spatial stochastic models of cancer initiation and progression. Bull. Math. Biol. DOI: 10.1007/s11538-005-9046-8, pp. 1-27.

50. Komarova, N.L. & Cheng, P. (2006) Epithelial tissue architecture protects against cancer. Math Biosciences , 200(1), pp 90-117.

49. Komarova, N.L. (2006) Language and mathematics: an evolutionary model of grammatical communication. In L. Grinin, V.C. de Munck and A. Korotaev (eds), History and Mathematics: Analysing and modeling global development , URSS, Moscow.

48. Komarova, N.L. (2006) Oscillations in population sizes - from ecology to history (a commentary). Structure and Dynamics: eJournal of Anthropological and Related Sciences , 1(1), Article 8.

47. Komarova, N.L. (2006) Population dynamics of human language: a complex system. Frontiers of engineering: reports on leading-edge engineering from the 2005 symposium, The National Academy Press, pp. 89-98.

46. Komarova, N.L. (2006) Stochastic modeling of drug resistance in cancer. Jour. Theor. Biol. , 239(3), pp. 351-366

2005

45. Komarova, N.L., Zou, X., Nie, Q. & Bardwell, L. (2005) A theoretical framework for specificity in cell signaling. Molecular Systems Biol. doi:10.1038/msb4100031, E1-E5

44. Wodarz, D. and Komarova, N.L. (2005) Evolutionary dynamics of drug resistance in cancer (review). Gene Therapy and Mol. Biol. 9, pp. 247-256.

43. Komarova, N.L. (2005) Cancer, aging and the optimal tissue design. Semin Cancer Biol., 15(6), pp. 494-505.

42. Wodarz, D. & Komarova, N.L. (2005) Emergence and prevention of resistance against small molecule inhibitors. Semin Cancer Biol. 15(6), pp. 506-14.

41. Komarova, N.L. & Wodarz, D. (2005) Drug resistance in cancer: principles of emergence and prevention. Proc. Natl. Acad. Sci. 102 (27), pp. 9714-9.

40. Komarova, N.L. & Soffer, A. (2005) Nonlinear waves in double-stranded DNA. Bull. Math. Biol. 67(4), pp. 701-718, also arXiv:cond-mat/0411621

39. Komarova, N.L. & Mironov, V. (2005) On the role of endothelial progenitor cells in tumor neovascularization. Jour. Theor. Biol. 235 (3), pp. 338-49

38. Komarova, N.L. (2005) Mathematical modeling of tumorigenesis: mission possible. Curr. Oncology 17(1), pp. 39-43.

37. Iwasa, Y., Michor, F., Komarova, N.L. and Nowak, M. (2005) Population genetics of tumor suppressor genes. Jour. Theor. Biol. 233 pp. 15-23.

Korotayev, A.V. and Komarova, N.L. (2005) Historical macrodynamics of China, in Korotayev, A.V., Malkov, A.S. and Khaltourina, D.A. The Laws of History. Mathematical Modeling of Historical Macroprocesses. Demography, Economy, Wars. Moscow: URSS (in Rusian).

Khaltourina, D.A., Korotayev, A.V. and Komarova, N.L. (2005) Demographic growth and civil wars in modern Sub-Saharan Africa: mathematical modeling, in Korotayev, A.V., Malkov, A.S. and Khaltourina, D.A. The Laws of History. Mathematical Modeling of Historical Macroprocesses. Demography, Economy, Wars. Moscow: URSS (in Rusian).

36. Nowak, M.A. and Komarova, N.L. (2005) The evolution of altruism: from game theory to human language, in C. Harper (ed.) Spiritual Information: 100 perspectives, Templeton Foundation Press.

2004

35. Komarova, N.L. & Wang, L. (2004). Initiation of colorectal cancer: where do the two hits hit? Cell Cycle 3(13).

34. Komarova, N.L. (2004) Genomic Instability in Cancer: Biological and Mathematical Approaches. Cell Cycle 3(8) 1081-5.

33. Komarova, N.L. (2004) Does cancer solve an optimization problem? Cell cycle 3(7).

32. Nowak, M.A., Michor, F., Komarova, N.L. & Iwasa, Y. (2004) Dynamics of tumor suppressor gene inactivation. Proc. Natl. Acad. Sci. 101, pp. 10635-10638.

31. Komarova, N.L. (2004) Replicator-mutator equation, universality property and population dynamics of learning. Jour. of Theor. Biol. 230(2), pp. 227-239.

30. Komarova, N.L. & Wodarz, D. (2004) The optimal rate of chromosome loss for cancer initiation and progression. Proc. Natl. Acad. Sci. 101(18), pp. 7017-7021.

29. Komarova, N.L. and Niyogi, P. (2004) Optimizing the mutual intelligibility of linguistic agents in a shared world. Jour. of Artificial Intelligence, 154(1-2), pp. 1-42.

28. Wodarz, D., Iwasa, Y., and Komarova, N.L. (2004) On the emergence of multifocal cancers. Jour. of Carcinogenesis 3(1) 13.

2003

27. Komarova, N.L. & Wodarz, D. (2003) Evolutionary dynamics of mutator phenotypes in cancer: implications for chemotherapy. Cancer Research 63(20), pp. 6635-42.

26. Komarova, N.L., Sengupta, A. & Nowak, M.A. (2003) Mutation-selection networks of cancer initiation: tumor suppressor genes and chromosomal instability. Jour. of Theor. Biol. 223(4), pp. 433-450.

25. Komarova, N.L. & Nowak, M.A. (2003) Language dynamics in finite populations. Jour. of Theor. Biol. 221, pp. 445-457.

24. Krakauer, D.C. and Komarova, N.L. (2003) Levels of selection in positive strand virus dynamics. Journ. Evol. Biol. 16(1), p. 64-73.

23. Michor, F., Iwasa, Y., Komarova, N.L. & Nowak, M.A. (2003) Local regulation of homeostasis favors chromosomal instability. Current Biology, 13, pp. 581-584.

22. Wei, X., Decker, J.M., Wang, S., Hui, H., Kappes, J.C., Wu, X., Salazar, J.F., Salazar, M.G., Kilby, J.M., Saag, M.S., Komarova, N.L., Nowak, M.A., Hahn, B.H., Kwong, P.D. & Shaw, G.M. (2003) Antibody Neutralization and Escape by HIV-1. Nature, 422, pp.307-312.

21. Komarova, N.L., Barnes, E., Klenerman, P. & Wodarz, D. (2003) Boosting immunity by anti-viral drug therapy: a simple relationship between timing, efficacy and success. Proc. Natl. Acad. Sci. 100(4), pp.1855-1860.

20. Komarova, N.L. and Rivin, I. (2003) Harmonic mean, random polynomials and stochastic matrices. Advances in Appl. Math. 31(2), pp.501-526 (math.PR/0105236)

19. Komarova, N.L. and Nowak, M.A. (2003) Language, learning and evolution, in S. Kirby & M. Christiansen (eds.) Language Evolution: The States of the Art, pp. 317-337, Oxford University Press.

18. Komarova, N.L., Lengauer, C., Vogelstein, B. & Nowak, M.A. (2003) Dynamics of genetic instability in sporadic and familial colorectal cancer. Cancer Biology and Therapy , 1(6), pp. 685-692.

2002

17. Nowak, M.A., Komarova, N.L., Sengupta, A., Jallepalli, P.V., Shih, I.-M., Vogelstein, B. & Lengauer, C. (2002) The role of chromosomal instability in tumor initiation, Proc. Natl. Acad. Sci. 99(25), pp. 16226-16231.

16. Komarova, N.L. and Nowak, M.A. (2002) Population dynamics of grammar acquisition, in A. Cangelosi & D. Parisi (eds.) Simulating the Evolution of Language, pp. 149-164, Springer Verlag, London.

15. Nowak, M.A., Komarova, N.L. & Niyogi, P. (2002) Computational and evolutionary aspects of language, Nature, 417, pp. 611-617.

2001

14. Komarova, N.L. and Hauser, M. (2001) Building the tower of babble. Trends in Cognitive Sciences, 5(10), pp. 412-413.

13. Nowak, M.A., Komarova, N.L. (2001) Toward an evolutionary theory of language. Trends in Cognitive Sciences, 5(7), pp. 288-295.

12. Komarova, N.L., Nowak, M.A. (2001) Natural selection of the critical period for grammar acquisition. Proc. Royal Soc. B, 268 , No. 1472, pp. 1189-1196.

11. Komarova, N.L. and Nowak, M.A. (2001) Evolutionary dynamics of the lexical matrix. Bull. Math. Biol, 63(3), pp. 451-485.

10. Komarova, N.L., Niyogi, P. and Nowak, M.A. (2001) Evolutionary dynamics of grammar acquisition. Jour. Theor. Biol, 209(1), pp. 43-59.

9. Nowak, M.A., Komarova, N.L. and Niyogi, P. (2001) Evolution of universal grammar. Science, 291, pp. 114-118.

Before 2001

8. Komarova, N.L. and Newell, A.C. (2000) Nonlinear dynamics of sand waves and sand banks. Jour. Fluid Mech., 415, pp. 285-321.

7. Komarova, N.L. and Hulscher, S.J.M.H. (2000) Linear mechanisms for sand wave formation. Jour. Fluid Mech., 413, pp. 219-246.

6. Komarova, N.L. and Newell, A.C. (1999) The competition between nonlinearity, dispersion and randomness in signal propagation. IMA Journ. of Appl. Math., 63, pp. 1-20.

5. Komarova, N.L. (1998) Essays on nonlinear waves: patterns under water; pulse propagation through random media, PhD Thesis, The University of Arizona.

4. Komarova, N.L., Malomed, B.A., Moloney, J.V. and Newell, A.C. (1997) Resonant quasiperiodic patterns in a three-dimensional lasing medium. Phys. Rev. A 56, pp. 803-812.

3. Komarova, N.L. and Newell, A.C. (1995) The mean flow driven by sandbar instabilities, in A. Doelman & A. van Harten (eds.) Nonlinear dynamics and pattern formation in the natural environment, pp. 147-167, Longman Publ.

2. Komarova, N.L. and Loskutov, A.Yu. (1995) Chaos and non-feedback controlling of oscillating chemical reactions. Math. Modeling 7, N. 10, pp. 133-142 (in Russian).

1. Komarova, N.L. and Loskutov, A.Yu. (1994) Stabilization of chaotic oscillations in dynamical systems. Proc. of the SPIE - The International Society for Optical Engineering 2037, pp. 71-80.


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