Publications of Patrick Charbonneau    :recent first  combined  bibtex listing:

Papers Published
  1. Norman, J; Sorrell, EL; Hu, Y; Siripurapu, V; Garcia, J; Bagwell, J; Charbonneau, P; Lubkin, SR; Bagnat, M, Tissue self-organization underlies morphogenesis of the notochord., Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences, vol. 373 no. 1759 (September, 2018) [doi] [abs] .
  2. Reyes, C; Fu, L; Suthanthiraraj, PPA; Owens, CE; Shields, CW; López, GP; Charbonneau, P; Wiley, BJ, The Limits of Primary Radiation Forces in Bulk Acoustic Standing Waves for Concentrating Nanoparticles, Particle & Particle Systems Characterization, vol. 35 no. 7 (July, 2018), pp. 1700470-1700470 [doi] .
  3. Hu, Y; Fu, L; Charbonneau, P, Correlation lengths in quasi-one-dimensional systems via transfer matrices, Molecular Physics (June, 2018), pp. 1-10 [doi] .
  4. Charbonneau, B; Charbonneau, P; Szamel, G, A microscopic model of the Stokes-Einstein relation in arbitrary dimension., The Journal of Chemical Physics, vol. 148 no. 22 (June, 2018), pp. 224503 [doi] [abs] .
  5. Hu, Y; Charbonneau, P, Clustering and assembly dynamics of a one-dimensional microphase former., Soft Matter (March, 2018) [doi] [abs] .
  6. Altan, I; Fusco, D; Afonine, PV; Charbonneau, P, Learning about Biomolecular Solvation from Water in Protein Crystals., Journal of Physical Chemistry B, vol. 122 no. 9 (March, 2018), pp. 2475-2486 [doi] [abs] .
  7. Bruno, AE; Charbonneau, P; Newman, J; Snell, EH; So, DR; Vanhoucke, V; Watkins, CJ; Williams, S; Wilson, J, Classification of crystallization outcomes using deep convolutional neural networks., Plos One, vol. 13 no. 6 (January, 2018), pp. e0198883 [doi] [abs] .
  8. Berthier, L; Charbonneau, P; Flenner, E; Zamponi, F, Origin of Ultrastability in Vapor-Deposited Glasses., Physical Review Letters, vol. 119 no. 18 (November, 2017), pp. 188002 [doi] [abs] .
  9. Berthier, L; Charbonneau, P; Coslovich, D; Ninarello, A; Ozawa, M; Yaida, S, Configurational entropy measurements in extremely supercooled liquids that break the glass ceiling., Proceedings of the National Academy of Sciences of the United States of America, vol. 114 no. 43 (October, 2017), pp. 11356-11361 [doi] [abs] .
  10. Charbonneau, P; Li, YC; Pfister, HD; Yaida, S, Cycle-expansion method for the Lyapunov exponent, susceptibility, and higher moments., Physical Review. E, vol. 96 no. 3-1 (September, 2017), pp. 032129 [doi] [abs] .
  11. Zhuang, Y; Charbonneau, P, Communication: Microphase equilibrium and assembly dynamics., The Journal of Chemical Physics, vol. 147 no. 9 (September, 2017), pp. 091102 [doi] [abs] .
  12. Charbonneau, P; Yaida, S, Nontrivial Critical Fixed Point for Replica-Symmetry-Breaking Transitions., Physical Review Letters, vol. 118 no. 21 (May, 2017), pp. 215701 [doi] [abs] .
  13. Pham, AT; Zhuang, Y; Detwiler, P; Socolar, JES; Charbonneau, P; Yellen, BB, Phase diagram and aggregation dynamics of a monolayer of paramagnetic colloids., Physical Review. E, vol. 95 no. 5-1 (May, 2017), pp. 052607 [doi] [abs] .
  14. Fu, L; Bian, C; Shields, CW; Cruz, DF; López, GP; Charbonneau, P, Assembly of hard spheres in a cylinder: a computational and experimental study., Soft Matter, vol. 13 no. 18 (May, 2017), pp. 3296-3306 [doi] [abs] .
  15. Charbonneau, P; Kurchan, J; Parisi, G; Urbani, P; Zamponi, F, Glass and Jamming Transitions: From Exact Results to Finite-Dimensional Descriptions, Annual Review of Condensed Matter Physics, vol. 8 no. 1 (March, 2017), pp. 265-288 [doi] .
  16. Yaida, S; Berthier, L; Charbonneau, P; Tarjus, G, Point-to-set lengths, local structure, and glassiness., Physical Review. E, vol. 94 no. 3-1 (September, 2016), pp. 032605 [doi] [abs] .
  17. Zhuang, Y; Charbonneau, P, Recent Advances in the Theory and Simulation of Model Colloidal Microphase Formers., Journal of Physical Chemistry B, vol. 120 no. 32 (August, 2016), pp. 7775-7782 [doi] [abs] .
  18. Charbonneau, P; Corwin, EI; Parisi, G; Poncet, A; Zamponi, F, Universal Non-Debye Scaling in the Density of States of Amorphous Solids., Physical Review Letters, vol. 117 no. 4 (July, 2016), pp. 045503 [doi] [abs] .
  19. Berthier, L; Charbonneau, P; Jin, Y; Parisi, G; Seoane, B; Zamponi, F, Growing timescales and lengthscales characterizing vibrations of amorphous solids., Proceedings of the National Academy of Sciences of the United States of America, vol. 113 no. 30 (July, 2016), pp. 8397-8401 [doi] [abs] .
  20. Altan, I; Charbonneau, P; Snell, EH, Computational crystallization., Archives of Biochemistry and Biophysics, vol. 602 (July, 2016), pp. 12-20 [doi] [abs] .
  21. Charbonneau, P; Dyer, E; Lee, J; Yaida, S, Linking dynamical heterogeneity to static amorphous order, Journal of Statistical Mechanics: Theory and Experiment, vol. 2016 no. 7 (July, 2016), pp. 074004-074004 [doi] .
  22. Zhuang, Y; Charbonneau, P, Equilibrium Phase Behavior of the Square-Well Linear Microphase-Forming Model., Journal of Physical Chemistry B, vol. 120 no. 26 (July, 2016), pp. 6178-6188 [doi] [abs] .
  23. McManus, JJ; Charbonneau, P; Zaccarelli, E; Asherie, N, The physics of protein self-assembly, Current Opinion in Colloid & Interface Science, vol. 22 (April, 2016), pp. 73-79 [doi] .
  24. Fu, L; Steinhardt, W; Zhao, H; Socolar, JES; Charbonneau, P, Hard sphere packings within cylinders., Soft Matter, vol. 12 no. 9 (March, 2016), pp. 2505-2514 [doi] [abs] .
  25. Tavarone, R; Charbonneau, P; Stark, H, Kinetic Monte Carlo simulations for birefringence relaxation of photo-switchable molecules on a surface., The Journal of Chemical Physics, vol. 144 no. 10 (March, 2016), pp. 104703 [doi] [abs] .
  26. Zhuang, Y; Zhang, K; Charbonneau, P, Equilibrium Phase Behavior of a Continuous-Space Microphase Former., Physical Review Letters, vol. 116 no. 9 (March, 2016), pp. 098301 [doi] [abs] .
  27. Marcoux, C; Byington, TW; Qian, Z; Charbonneau, P; Socolar, JES, Erratum: Emergence of limit-periodic order in tiling models [Phys. Rev. E 90 , 012136 (2014)], Physical Review. E, vol. 93 no. 2 (February, 2016) [doi] .
  28. Fusco, D; Charbonneau, P, Soft matter perspective on protein crystal assembly., Colloids and Surfaces. B, Biointerfaces, vol. 137 (January, 2016), pp. 22-31 [doi] [abs] .
  29. Berthier, L; Charbonneau, P; Yaida, S, Efficient measurement of point-to-set correlations and overlap fluctuations in glass-forming liquids., The Journal of Chemical Physics, vol. 144 no. 2 (January, 2016), pp. 024501 [doi] [abs] .
  30. Owens, CE; Shields, CW; Cruz, DF; Charbonneau, P; López, GP, Highly parallel acoustic assembly of microparticles into well-ordered colloidal crystallites., Soft Matter, vol. 12 no. 3 (January, 2016), pp. 717-728 [doi] [abs] .
  31. Tavarone, R; Charbonneau, P; Stark, H, Phase ordering of zig-zag and bow-shaped hard needles in two dimensions., The Journal of Chemical Physics, vol. 143 no. 11 (September, 2015), pp. 114505 [doi] [abs] .
  32. Jin, Y; Charbonneau, P, Dimensional study of the dynamical arrest in a random Lorentz gas., Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics, vol. 91 no. 4 (April, 2015), pp. 042313 [doi] [abs] .
  33. Charbonneau, P; Corwin, EI; Parisi, G; Zamponi, F, Jamming criticality revealed by removing localized buckling excitations., Physical Review Letters, vol. 114 no. 12 (March, 2015), pp. 125504 [doi] [abs] .
  34. Yang, Y; Fu, L; Marcoux, C; Socolar, JES; Charbonneau, P; Yellen, BB, Phase transformations in binary colloidal monolayers., Soft Matter, vol. 11 no. 12 (March, 2015), pp. 2404-2415 [doi] [abs] .
  35. Ye Yang, Lin Fu, Catherine Marcoux, Joshua E. S. Socolar, Patrick Charbonneau, Benjamin B. Yellen, Martensitic Transformations in Binary Colloidal Monolayers, Soft Matter (2015) [doi] [abs] .
  36. Charbonneau, P; Jin, Y; Parisi, G; Zamponi, F, Hopping and the Stokes-Einstein relation breakdown in simple glass formers., Proceedings of the National Academy of Sciences of the United States of America, vol. 111 no. 42 (October, 2014), pp. 15025-15030 [5677], [doi] [abs] .
  37. Charbonneau, P; Kurchan, J; Parisi, G; Urbani, P; Zamponi, F, Exact theory of dense amorphous hard spheres in high dimension. III. The full replica symmetry breaking solution, Journal of Statistical Mechanics: Theory and Experiment, vol. 2014 no. 10 (October, 2014), pp. P10009-P10009 [2549], [doi] [abs] .
  38. Marcoux, C; Byington, TW; Qian, Z; Charbonneau, P; Socolar, JES, Emergence of limit-periodic order in tiling models., Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics, vol. 90 no. 1 (July, 2014), pp. 012136 [2905], [doi] [abs] .
  39. Fusco, D; Charbonneau, P, Competition between monomeric and dimeric crystals in schematic models for globular proteins., Journal of Physical Chemistry B, vol. 118 no. 28 (July, 2014), pp. 8034-8041 [jp5011428], [doi] [abs] .
  40. Fusco, D; Barnum, TJ; Bruno, AE; Luft, JR; Snell, EH; Mukherjee, S; Charbonneau, P, Statistical analysis of crystallization database links protein physico-chemical features with crystallization mechanisms., Plos One, vol. 9 no. 7 (January, 2014), pp. e101123 [repository], [doi] [abs] .
  41. Charbonneau, P; Kurchan, J; Parisi, G; Urbani, P; Zamponi, F, Fractal free energy landscapes in structural glasses., Nature Communications, vol. 5 (January, 2014), pp. 3725 [doi] [abs] .
  42. Fusco, D; Headd, JJ; De Simone, A; Wang, J; Charbonneau, P, Characterizing protein crystal contacts and their role in crystallization: rubredoxin as a case study., Soft Matter, vol. 10 no. 2 (January, 2014), pp. 290-302 [Gateway.cgi], [doi] [abs] .
  43. Fusco, D; Charbonneau, P, Crystallization of asymmetric patchy models for globular proteins in solution., Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics, vol. 88 no. 1 (July, 2013), pp. 012721 [Gateway.cgi], [doi] [abs] .
  44. Charbonneau, P; Tarjus, G, Decorrelation of the static and dynamic length scales in hard-sphere glass formers, Physical Review. E, vol. 87 no. 4 (April, 2013), pp. 042305 [23679412], [doi] [abs] .
  45. Charbonneau, B; Charbonneau, P; Jin, Y; Parisi, G; Zamponi, F, Dimensional dependence of the Stokes-Einstein relation and its violation, The Journal of Chemical Physics, vol. 139 no. 16 (2013), pp. 164502 [6073], [doi] [abs] .
  46. Charbonneau, B; Charbonneau, P; Tarjus, G, Geometrical frustration and static correlations in hard-sphere glass formers, The Journal of Chemical Physics, vol. 138 no. 12 (2013), pp. 12A515 [4445], [doi] [abs] .
  47. Charbonneau, P; Corwin, EI; Parisi, G; Zamponi, F, Universal microstructure and mechanical stability of jammed packings., Physical Review Letters, vol. 109 no. 20 (November, 2012), pp. 205501 [23215504], [doi] [abs] .
  48. Zhang, K; Charbonneau, P, [N]pT ensemble and finite-size-scaling study of the critical isostructural transition in the generalized exponential model of index 4., Phys Rev E Stat Nonlin Soft Matter Phys, vol. 86 no. 4 Pt 1 (October, 2012), pp. 042501 [23214631], [doi] [abs] .
  49. Charbonneau, P; Ikeda, A; Parisi, G; Zamponi, F, Dimensional study of the caging order parameter at the glass transition., Proc Natl Acad Sci U S A, vol. 109 no. 35 (August, 2012), pp. 13939-13943 [22891303], [doi] [abs] .
  50. Zhang, K; Charbonneau, P, [N]pT Monte Carlo simulations of the cluster-crystal-forming penetrable sphere model., The Journal of Chemical Physics, vol. 136 no. 21 (June, 2012), pp. 214106 [22697529], [doi] [abs] .
  51. Bergin, SM; Chen, Y-H; Rathmell, AR; Charbonneau, P; Li, Z-Y; Wiley, BJ, The effect of nanowire length and diameter on the properties of transparent, conducting nanowire films., Nanoscale, vol. 4 no. 6 (March, 2012), pp. 1996-2004 [22349106], [doi] [abs] .
  52. Zhang, K; Charbonneau, P, Erratum: [N]pT ensemble and finite-size-scaling study of the critical isostructural transition in the generalized exponential model of index 4, Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics, vol. 86 no. 6 (2012) [doi] .
  53. Zhang, K; Charbonneau, P, [N]pT ensemble and finite-size-scaling study of the critical isostructural transition in the generalized exponential model of index 4, Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics, vol. 86 no. 4 (2012), pp. 042501 [23214631], [doi] [abs] .
  54. Charbonneau, B; Charbonneau, P; Tarjus, G, Geometrical frustration and static correlations in a simple glass former, Physical Review Letters, vol. 108 no. 3 (2012), pp. 035701 [2494], [doi] [abs] .
  55. Charbonneau, P; Ikeda, A; Parisi, G; Zamponi, F, Glass transition and random close packing above three dimensions., Phys Rev Lett, vol. 107 no. 18 (October, 2011), pp. 185702 [22107645], [doi] [abs] .
  56. Zhang, K; Charbonneau, P, Monte Carlo approach for studying microphases applied to the axial next-nearest-neighbor Ising and the Ising-Coulomb models, Physical Review B, vol. 83 no. 21 (2011), pp. 214303 [1405], [doi] [abs] .
  57. Zhang, K; Charbonneau, P; Mladek, BM, Reentrant and isostructural transitions in a cluster-crystal former., Physical Review Letters, vol. 105 no. 24 (December, 2010), pp. 245701 [21231534], [doi] [abs] .
  58. Jin, Y; Charbonneau, P; Meyer, S; Song, C; Zamponi, F, Application of Edwards' statistical mechanics to high-dimensional jammed sphere packings., Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics, vol. 82 no. 5 Pt 1 (November, 2010), pp. 051126 [repository], [doi] [abs] .
  59. Zhang, K; Charbonneau, P, Monte carlo study of the axial next-nearest-neighbor Ising model., Phys Rev Lett, vol. 104 no. 19 (May, 2010), pp. 195703 [20866979], [doi] [abs] .
  60. Charbonneau, P; Ikeda, A; van Meel, JA; Miyazaki, K, Numerical and theoretical study of a monodisperse hard-sphere glass former., Phys Rev E Stat Nonlin Soft Matter Phys, vol. 81 no. 4 Pt 1 (April, 2010), pp. 040501 [20481668], [doi] [abs] .
  61. van Meel, JA; Charbonneau, B; Fortini, A; Charbonneau, P, Hard-sphere crystallization gets rarer with increasing dimension., Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics, vol. 80 no. 6 Pt 1 (December, 2009), pp. 061110 [repository], [doi] [abs] .
  62. van Meel, JA; Frenkel, D; Charbonneau, P, Geometrical frustration: a study of four-dimensional hard spheres., Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics, vol. 79 no. 3 Pt 1 (March, 2009), pp. 030201 [1775], [doi] [abs] .
  63. Mladek, BM; Charbonneau, P; Likos, CN; Frenkel, D; Kahl, G, Multiple occupancy crystals formed by purely repulsive soft particles, Journal of Physics. Condensed Matter : an Institute of Physics Journal, vol. 20 no. 49 (December, 2008), pp. 494245-494245 [doi] [abs] .
  64. Charbonneau, P; Das, C; Frenkel, D, Dynamical heterogeneity in a glass-forming ideal gas, Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics, vol. 78 no. 1 (2008), pp. 011505 [3704], [doi] [abs] .
  65. Mladek, BM; Charbonneau, P; Frenkel, D, Phase coexistence of cluster crystals: Beyond the gibbs phase rule, Physical Review Letters, vol. 99 no. 23 (2007), pp. 235702 [2979], [doi] [abs] .
  66. Charbonneau, P; Reichman, DR, Dynamical heterogeneity and nonlinear susceptibility in supercooled liquids with short-range attraction, Physical Review Letters, vol. 99 no. 13 (2007), pp. 135701 [1657], [doi] [abs] .
  67. Charbonneau, P; Reichman, DR, Systematic characterization of thermodynamic and dynamical phase behavior in systems with short-ranged attraction, Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics, vol. 75 no. 1 (2007), pp. 011507 [0604428], [doi] [abs] .
  68. Charbonneau, P; Frenkel, D, Gas-solid coexistence of adhesive spheres, The Journal of Chemical Physics, vol. 126 no. 19 (2007), pp. 196101 [0703378], [doi] [abs] .
  69. Charbonneau, P; Reichman, DR, Phase behavior and far-from-equilibrium gelation in charged attractive colloids, Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics, vol. 75 no. 5 (2007), pp. 050401(R) [0604430], [doi] [abs] .
  70. Reichman, DR; Charbonneau, P, Mode-coupling theory, Journal of Statistical Mechanics: Theory and Experiment, vol. 2005 no. 05 (May, 2005), pp. P05013-P05013 [0511407], [doi] [abs] .
  71. Chamon, C; Charbonneau, P; Cugliandolo, LF; Reichman, DR; Sellitto, M, Out-of-equilibrium dynamical fluctuations in glassy systems, The Journal of Chemical Physics, vol. 121 no. 20 (2004), pp. 10120-10137 [0401326], [doi] [abs] .
  72. Barden, CJ; Charbonneau, P; III, HFS, Group 13-group 16 heterocubanes [RM(μ3-E)]4 (R = H, CH3; M = Al, Ga, In; E = O, S, Se, Te) and group 13 cubanes [RM(μ3-M)]4 (R = F, Cl, CH3, NO2; M = Al, Ga, In): A structural study, Organometallics, vol. 21 no. 17 (2002), pp. 3605-3609 [doi] [abs] .
  73. Charbonneau, P; Jean-Claude, B; Whitehead, MA, Synthesis of a prodrug: A semi-empirical PM3 study, Journal of Molecular Structure: Theochem, vol. 574 (2001), pp. 85-91 [doi] [abs] .
  74. Spivey, AC; Charbonneau, P; Fekner, T; Hochmuth, DH; Maddaford, A; Malardier-Jugroot, C; Redgrave, AJ; Whitehead, MA, Energy barriers to rotation in axially chiral analogues of 4-(dimethylamino)pyridine, The Journal of Organic Chemistry, vol. 66 no. 22 (2001), pp. 7394-7401 [doi] [abs] .
Papers Accepted
  1. Patrick Charbonneau, Eric I. Corwin, Giorgio Parisi, and Francesco Zamponi, Jamming Criticality Revealed by Removing “Bucklers”, Physical Review Letters (2015) [1411.3975v1] [abs] .
Papers Submitted
  1. Charbonneau, P; Jin, Y; Parisi, G; Rainone, C; Seoane, B; Zamponi, F, Numerical detection of the Gardner transition in a mean-field glass former., Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics, vol. 92 no. 1 (July, 2015), pp. 012316 [1501.07244], [doi] [abs] .
  2. Y. Jin, P. Charbonneau, Mapping the arrest of the random Lorentz gas to the dynamical transition of simple glass formers (2014) [0688] [abs] .