Tom Chou

Tom Chou

Professor, Computational Medicine, University of California Los Angeles

Publications

  1. Li X, Chou T. Stochastic nucleosome disassembly mediated by remodelers and histone fragmentation.. The Journal of chemical physics, 2023.
  2. Li X, Habibipour S, Chou T, Yang OO. The role of APOBEC3-induced mutations in the differential evolution of monkeypox virus.. Virus evolution, 2023.
  3. Li X, Chou T. Stochastic nucleosome disassembly mediated by remodelers and histone fragmentation.. ArXiv, 2023.
  4. Wang Y, Shtylla B, Chou T. Order-of-mutation effects on cancer progression: models for myeloproliferative neoplasm.. medRxiv : the preprint server for health sciences, 2023.
  5. Wang Y, Shtylla B, Chou T. Order-of-mutation effects on cancer progression: models for myeloproliferative neoplasm.. ArXiv, 2023.
  6. Li X, Habibipour S, Chou T, Yang OO. The role of APOBEC3-induced mutations in the differential evolution of monkeypox virus.. ArXiv, 2023.
  7. D'Orsogna MR, Böttcher L, Chou T. Fentanyl-driven acceleration of racial, gender and geographical disparities in drug overdose deaths in the United States.. PLOS global public health, 2023.
  8. Xia M, Li X, Chou T. Population overcompensation, transients, and oscillations in age-structured Lotka-Volterra models.. ArXiv, 2023.
  9. Li X, Chou T. Stochastic dynamics and ribosome-RNAP interactions in transcription-translation coupling.. Biophysical journal, 2022.
  10. Wang Y, Mistry BA, Chou T. Discrete stochastic models of SELEX: Aptamer capture probabilities and protocol optimization.. The Journal of chemical physics, 2022.
  11. Wang Y, Dessalles R, Chou T. Modelling the impact of birth control policies on China's population and age: effects of delayed births and minimum birth age constraints.. Royal Society open science, 2022.
  12. Dessalles R, Pan Y, Xia M, Maestrini D, D'Orsogna MR, Chou T. How Naive T-Cell Clone Counts Are Shaped By Heterogeneous Thymic Output and Homeostatic Proliferation.. Frontiers in immunology, 2022.
  13. Chou T, D'Orsogna MR. A mathematical model of reward-mediated learning in drug addiction.. Chaos (Woodbury, N.Y.), 2022.
  14. Zuo X, Chou T. Density- and elongation speed-dependent error correction in RNA polymerization.. Physical biology, 2022.
  15. Böttcher L, D'Orsogna MR, Chou T. A statistical model of COVID-19 testing in populations: effects of sampling bias andtesting errors.. Philosophical transactions. Series A, Mathematical, physical, and engineering sciences, 2021.
  16. Markaki Y, Gan Chong J, Wang Y, Jacobson EC, Luong C, Tan SYX, Jachowicz JW, Strehle M, Maestrini D, Banerjee AK, Mistry BA, Dror I, Dossin F, Schöneberg J, Heard E, Guttman M, Chou T, Plath K. Xist nucleates local protein gradients to propagate silencing across the X chromosome.. Cell, 2021.
  17. Pardridge WM, Chou T. Mathematical Models of Blood-Brain Barrier Transport of Monoclonal Antibodies Targeting the Transferrin Receptor and the Insulin Receptor.. Pharmaceuticals (Basel, Switzerland), 2021.
  18. Böttcher L, D'Orsogna MR, Chou T. A statistical model of COVID-19 testing in populations: effects of sampling bias and testing errors.. medRxiv : the preprint server for health sciences, 2021.
  19. Böttcher L, D'Orsogna MR, Chou T. Using excess deaths and testing statistics to determine COVID-19 mortalities.. European journal of epidemiology, 2021.
  20. Böttcher L, D'Orsogna MR, Chou T. Using excess deaths and testing statistics to improve estimates of COVID-19 mortalities.. medRxiv : the preprint server for health sciences, 2021.
  21. Böttcher L, D'Orsogna MR, Chou T. Using excess deaths and testing statistics to improve estimates of COVID-19 mortalities.. ArXiv, 2021.
  22. Böttcher L, Xia M, Chou T. Why case fatality ratios can be misleading: individual- and population-based mortality estimates and factors influencing them.. Physical biology, 2020.
  23. Böttcher L, Xia M, Chou T. Why estimating population-based case fatality rates during epidemics may be misleading.. medRxiv : the preprint server for health sciences, 2020.
  24. Xu S, Böttcher L, Chou T. Diversity in biology: definitions, quantification and models.. Physical biology, 2020.
  25. Xia M, Greenman CD, Chou T. PDE MODELS OF ADDER MECHANISMS IN CELLULAR PROLIFERATION.. SIAM journal on applied mathematics, 2020.
  26. Lewkiewicz SM, Chuang YL, Chou T. Dynamics of T cell receptor distributions following acute thymic atrophy and resumption.. Mathematical biosciences and engineering : MBE, 2019.
  27. Lewkiewicz S, Chuang YL, Chou T. A Mathematical Model of the Effects of Aging on Naive T Cell Populations and Diversity.. Bulletin of mathematical biology, 2019.
  28. Mistry BA, Chou T. Nonspecific probe binding and automatic gating in flow cytometry and fluorescence activated cell sorting (FACS).. Mathematical biosciences and engineering : MBE, 2019.
  29. Chang SS, Chou T. A Dynamical Bifurcation Model of Bipolar Disorder Based on Learned Expectation and Asymmetry in Mood Sensitivity.. Computational psychiatry (Cambridge, Mass.), 2018.
  30. Mistry BA, D'Orsogna MR, Chou T. The Effects of Statistical Multiplicity of Infection on Virus Quantification and Infectivity Assays.. Biophysical journal, 2018.
  31. Kim LU, D'Orsogna MR, Chou T. Perturbing the Hypothalamic-Pituitary-Adrenal Axis: A Mathematical Model for Interpreting PTSD Assessment Tests.. Computational psychiatry (Cambridge, Mass.), 2018.
  32. Chang JC, Liu Y, Chou T. Reconstruction of Cell Focal Adhesions using Physical Constraints and Compressive Regularization.. Biophysical journal, 2017.
  33. Suryawanshi GW, Xu S, Xie Y, Chou T, Kim N, Chen ISY, Kim S. Bidirectional Retroviral Integration Site PCR Methodology and Quantitative Data Analysis Workflow.. Journal of visualized experiments : JoVE, 2017.
  34. Mistry B, D'Orsogna MR, Webb NE, Lee B, Chou T. Quantifying the Sensitivity of HIV-1 Viral Entry to Receptor and Coreceptor Expression.. The journal of physical chemistry. B, 2016.
  35. Chou T, Greenman CD. A Hierarchical Kinetic Theory of Birth, Death and Fission in Age-Structured Interacting Populations.. Journal of statistical physics, 2016.
  36. Chuang YL, Chou T, D'Orsogna MR. Swarming in viscous fluids: Three-dimensional patterns in swimmer- and force-induced flows.. Physical review. E, 2016.
  37. Kim LU, D'Orsogna MR, Chou T. Onset, timing, and exposure therapy of stress disorders: mechanistic insight from a mathematical model of oscillating neuroendocrine dynamics.. Biology direct, 2016.
  38. Chang JC, Fok PW, Chou T. Bayesian Uncertainty Quantification for Bond Energies and Mobilities Using Path Integral Analysis.. Biophysical journal, 2015.
  39. D'Orsogna MR, Lei Q, Chou T. First assembly times and equilibration in stochastic coagulation-fragmentation.. The Journal of chemical physics, 2015.
  40. Chou T, Wang Y. Fixation times in differentiation and evolution in the presence of bottlenecks, deserts, and oases.. Journal of theoretical biology, 2015.
  41. Berenji B, Chou T, D'Orsogna MR. Recidivism and rehabilitation of criminal offenders: a carrot and stick evolutionary game.. PloS one, 2014.
  42. D'Orsogna MR, Zhao B, Berenji B, Chou T. Combinatoric analysis of heterogeneous stochastic self-assembly.. The Journal of chemical physics, 2013.
  43. Yvinec R, D'Orsogna MR, Chou T. First passage times in homogeneous nucleation and self-assembly.. The Journal of chemical physics, 2012.
  44. Chou T, Siegel M. A mechanical model of retinal detachment.. Physical biology, 2012.
  45. Chang JC, Brennan KC, Chou T. Tracking monotonically advancing boundaries in image sequences using graph cuts and recursive kernel shape priors.. IEEE transactions on medical imaging, 2011.
  46. Chou T, D'Orsogna MR. Coarsening and accelerated equilibration in mass-conserving heterogeneous nucleation.. Physical review. E, Statistical, nonlinear, and soft matter physics, 2011.
  47. Gibbons MM, Chou T, D'Orsogna MR. Diffusion-dependent mechanisms of receptor engagement and viral entry.. The journal of physical chemistry. B, 2010.
  48. Posta F, Chou T. A mathematical model of intercellular signaling during epithelial wound healing.. Journal of theoretical biology, 2010.
  49. Nowak SA, Chakrabarti B, Chou T, Gopinathan A. Frequency-dependent chemolocation and chemotactic target selection.. Physical biology, 2010.
  50. Nowak SA, Chou T. Models of dynamic extraction of lipid tethers from cell membranes.. Physical biology, 2010.
  51. D'Orsogna MR, Chou T. Optimal cytoplasmic transport in viral infections.. PloS one, 2009.
  52. Johnston SH, Lobritz MA, Nguyen S, Lassen K, Delair S, Posta F, Bryson YJ, Arts EJ, Chou T, Lee B. A quantitative affinity-profiling system that reveals distinct CD4/CCR5 usage patterns among human immunodeficiency virus type 1 and simian immunodeficiency virus strains.. Journal of virology, 2009.
  53. Chou T. Enhancement of charged macromolecule capture by nanopores in a salt gradient.. The Journal of chemical physics, 2009.
  54. Fok PW, Chou T. Accelerated search kinetics mediated by redox reactions of DNA repair enzymes.. Biophysical journal, 2009.
  55. Posta F, D'Orsogna MR, Chou T. Enhancement of cargo processivity by cooperating molecular motors.. Physical chemistry chemical physics : PCCP, 2009.
  56. Nowak SA, Chou T. Mechanisms of receptor/coreceptor-mediated entry of enveloped viruses.. Biophysical journal, 2009.
  57. Fok PW, Guo CL, Chou T. Charge-transport-mediated recruitment of DNA repair enzymes.. The Journal of chemical physics, 2008.
  58. Nowak SA, Chou T. Membrane lipid segregation in endocytosis.. Physical review. E, Statistical, nonlinear, and soft matter physics, 2008.
  59. Kim KS, Chou T, Rudnick J. Degenerate ground-state lattices of membrane inclusions.. Physical review. E, Statistical, nonlinear, and soft matter physics, 2008.
  60. Lakhanpal A, Chou T. Brownian ratchets driven by asymmetric nucleation of hydrolysis waves.. Physical review letters, 2007.
  61. Nowak SA, Fok PW, Chou T. Dynamic boundaries in asymmetric exclusion processes.. Physical review. E, Statistical, nonlinear, and soft matter physics, 2007.
  62. Chou T, D'Orsogna MR. Multistage adsorption of diffusing macromolecules and viruses.. The Journal of chemical physics, 2007.
  63. Chou T. Peeling and sliding in nucleosome repositioning.. Physical review letters, 2007.
  64. D'Orsogna MR, Chou T, Antal T. Exact steady-state velocity of ratchets driven by random sequential adsorption.. Journal of physics A: Mathematical and general, 2007.
  65. Chou T. Stochastic entry of enveloped viruses: fusion versus endocytosis.. Biophysical journal, 2007.
  66. Chou T. Band gaps and the Kelvin-Helmholtz instability.. Physical review. E, Statistical, nonlinear, and soft matter physics, 2007.
  67. D'Orsogna MR, Chou T. First passage and cooperativity of queuing kinetics.. Physical review letters, 2005.
  68. Lakatos G, Chou T, Bergersen B, Patey GN. First passage times of driven DNA hairpin unzipping.. Physical biology, 2005.
  69. Lakatos G, Chou T, Kolomeisky A. Steady-state properties of a totally asymmetric exclusion process with periodic structure.. Physical review. E, Statistical, nonlinear, and soft matter physics, 2005.
  70. Chou T, Lakatos G. Clustered bottlenecks in mRNA translation and protein synthesis.. Physical review letters, 2004.
  71. Blower SM, Chou T. Modeling the emergence of the 'hot zones': tuberculosis and the amplification dynamics of drug resistance.. Nature medicine, 2004.
  72. Klapstein K, Chou T, Bruinsma R. Physics of RecA-mediated homologous recognition.. Biophysical journal, 2004.
  73. Foster WJ, Chou T. Physical mechanisms of gas and perfluoron retinopexy and sub-retinal fluid displacement.. Physics in medicine and biology, 2004.
  74. Chou T. Water alignment, dipolar interactions, and multiple proton occupancy during water-wire proton transport.. Biophysical journal, 2004.
  75. D'Orsogna MR, Suchard MA, Chou T. Interplay of chemotaxis and chemokinesis mechanisms in bacterial dynamics.. Physical review. E, Statistical, nonlinear, and soft matter physics, 2003.
  76. Chou T. Ribosome recycling, diffusion, and mRNA loop formation in translational regulation.. Biophysical journal, 2003.
  77. Chou T, Kim KS, Oster G. Statistical thermodynamics of membrane bending-mediated protein-protein attractions.. Biophysical journal, 2001.