Daan Frenkel, PhD - Publications

Affiliations: 
Chemistry University of Cambridge, Cambridge, England, United Kingdom 
Area:
soft condensed matter, simulation techniques
Website:
http://www.knaw.nl/nl/leden/leden/4122

143 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Espinosa JR, Garaizar A, Vega C, Frenkel D, Collepardo-Guevara R. Breakdown of the law of rectilinear diameter and related surprises in the liquid-vapor coexistence in systems of patchy particles. The Journal of Chemical Physics. 150: 224510. PMID 31202247 DOI: 10.1063/1.5098551  0.6
2018 Espinosa JR, Wand CR, Vega C, Sanz E, Frenkel D. Calculation of the water-octanol partition coefficient of cholesterol for SPC, TIP3P, and TIP4P water. The Journal of Chemical Physics. 149: 224501. PMID 30553262 DOI: 10.1063/1.5054056  0.36
2017 Frenkel D, Schrenk KJ, Martiniani S. Monte Carlo sampling for stochastic weight functions. Proceedings of the National Academy of Sciences of the United States of America. PMID 28634292 DOI: 10.1073/pnas.1620497114  0.84
2017 Wirnsberger P, Fijan D, Lightwood RA, Šarić A, Dellago C, Frenkel D. Numerical evidence for thermally induced monopoles. Proceedings of the National Academy of Sciences of the United States of America. PMID 28439003 DOI: 10.1073/pnas.1621494114  0.4
2016 Šarić A, Buell AK, Meisl G, Michaels TCT, Dobson CM, Linse S, Knowles TPJ, Frenkel D. Physical determinants of the self-replication of protein fibrils. Nature Physics. 12: 874-880. PMID 31031819 DOI: 10.1038/nphys3828  0.4
2016 Šarić A, Michaels TCT, Zaccone A, Knowles TPJ, Frenkel D. Kinetics of spontaneous filament nucleation via oligomers: Insights from theory and simulation. The Journal of Chemical Physics. 145: 211926. PMID 28799382 DOI: 10.1063/1.4965040  0.4
2016 Martiniani S, Schrenk KJ, Stevenson JD, Wales DJ, Frenkel D. Structural analysis of high-dimensional basins of attraction. Physical Review. E. 94: 031301. PMID 27739758 DOI: 10.1103/PhysRevE.94.031301  1
2016 Tito NB, Angioletti-Uberti S, Frenkel D. Communication: Simple approach for calculating the binding free energy of a multivalent particle. The Journal of Chemical Physics. 144: 161101. PMID 27131519 DOI: 10.1063/1.4948257  0.4
2016 Lee EY, Lee CK, Schmidt NW, Jin F, Lande R, Curk T, Frenkel D, Dobnikar J, Gilliet M, Wong GC. A review of immune amplification via ligand clustering by self-assembled liquid-crystalline DNA complexes. Advances in Colloid and Interface Science. PMID 26956527 DOI: 10.1016/j.cis.2016.02.003  0.48
2016 Martiniani S, Schrenk KJ, Stevenson JD, Wales DJ, Frenkel D. Turning intractable counting into sampling: Computing the configurational entropy of three-dimensional jammed packings. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 93: 012906. PMID 26871142 DOI: 10.1103/PhysRevE.93.012906  0.48
2016 Angioletti-Uberti S, Mognetti BM, Frenkel D. Theory and simulation of DNA-coated colloids: a guide for rational design. Physical Chemistry Chemical Physics : Pccp. PMID 26862595 DOI: 10.1039/c5cp06981e  0.4
2015 Schrenk KJ, Frenkel D. Communication: Evidence for non-ergodicity in quiescent states of periodically sheared suspensions. The Journal of Chemical Physics. 143: 241103. PMID 26723582 DOI: 10.1063/1.4938999  1
2015 Staneva I, Frenkel D. The role of non-specific interactions in a patchy model of protein crystallization. The Journal of Chemical Physics. 143: 194511. PMID 26590546 DOI: 10.1063/1.4935369  1
2015 Curk T, Dobnikar J, Frenkel D. Rational design of molecularly imprinted polymers. Soft Matter. PMID 26452006 DOI: 10.1039/c5sm02144h  1
2015 Wirnsberger P, Frenkel D, Dellago C. An enhanced version of the heat exchange algorithm with excellent energy conservation properties. The Journal of Chemical Physics. 143: 124104. PMID 26428993 DOI: 10.1063/1.4931597  1
2015 Jacobs WM, Frenkel D. Self-assembly protocol design for periodic multicomponent structures. Soft Matter. PMID 26404794 DOI: 10.1039/c5sm01841b  1
2015 Collepardo-Guevara R, Portella G, Vendruscolo M, Frenkel D, Schlick T, Orozco M. Chromatin Unfolding by Epigenetic Modifications Explained by Dramatic Impairment of Internucleosome Interactions: A Multiscale Computational Study. Journal of the American Chemical Society. 137: 10205-15. PMID 26192632 DOI: 10.1021/jacs.5b04086  1
2015 Schmidt NW, Jin F, Lande R, Curk T, Xian W, Lee C, Frasca L, Frenkel D, Dobnikar J, Gilliet M, Wong GC. Liquid-crystalline ordering of antimicrobial peptide-DNA complexes controls TLR9 activation. Nature Materials. 14: 696-700. PMID 26053762 DOI: 10.1038/nmat4298  1
2015 Jacobs WM, Reinhardt A, Frenkel D. Rational design of self-assembly pathways for complex multicomponent structures. Proceedings of the National Academy of Sciences of the United States of America. 112: 6313-8. PMID 25941388 DOI: 10.1073/pnas.1502210112  1
2015 Dubacheva GV, Curk T, Auzély-Velty R, Frenkel D, Richter RP. Designing multivalent probes for tunable superselective targeting. Proceedings of the National Academy of Sciences of the United States of America. 112: 5579-84. PMID 25901321 DOI: 10.1073/pnas.1500622112  1
2015 Merlet C, Forse AC, Griffin JM, Frenkel D, Grey CP. Lattice simulation method to model diffusion and NMR spectra in porous materials. The Journal of Chemical Physics. 142: 094701. PMID 25747093 DOI: 10.1063/1.4913368  1
2015 Jacobs WM, Reinhardt A, Frenkel D. Communication: theoretical prediction of free-energy landscapes for complex self-assembly. The Journal of Chemical Physics. 142: 021101. PMID 25591330 DOI: 10.1063/1.4905670  1
2015 Frenkel D. Order through entropy. Nature Materials. 14: 9-12. PMID 25515990 DOI: 10.1038/nmat4178  1
2015 Rotenberg B, Jackson G, Frenkel D. Jean-Pierre Hansen - A stimulating history of simulating fluids Molecular Physics. 113: 2363-2375. DOI: 10.1080/00268976.2015.1079971  1
2015 van Meel JA, Liu Y, Frenkel D. Mechanism of two-step vapour–crystal nucleation in a pore Molecular Physics. DOI: 10.1080/00268976.2015.1031844  1
2014 Šari? A, Chebaro YC, Knowles TP, Frenkel D. Crucial role of nonspecific interactions in amyloid nucleation. Proceedings of the National Academy of Sciences of the United States of America. 111: 17869-74. PMID 25453085 DOI: 10.1073/pnas.1410159111  1
2014 Tito NB, Frenkel D. Optimizing the Selectivity of Surface-Adsorbing Multivalent Polymers. Macromolecules. 47: 7496-7509. PMID 25400296 DOI: 10.1021/ma5014918  1
2014 Angioletti-Uberti S, Varilly P, Mognetti BM, Frenkel D. Mobile linkers on DNA-coated colloids: valency without patches. Physical Review Letters. 113: 128303. PMID 25279648 DOI: 10.1103/PhysRevLett.113.128303  1
2014 Reinhardt A, Frenkel D. Numerical evidence for nucleated self-assembly of DNA brick structures. Physical Review Letters. 112: 238103. PMID 24972230 DOI: 10.1103/PhysRevLett.112.238103  1
2014 Jacobs WM, Oxtoby DW, Frenkel D. Phase separation in solutions with specific and nonspecific interactions. The Journal of Chemical Physics. 140: 204109. PMID 24880268 DOI: 10.1063/1.4878836  1
2014 Di Michele L, Mognetti BM, Yanagishima T, Varilly P, Ruff Z, Frenkel D, Eiser E. Effect of inert tails on the thermodynamics of DNA hybridization. Journal of the American Chemical Society. 136: 6538-41. PMID 24750023 DOI: 10.1021/ja500027v  1
2014 Curk T, Martinez-Veracoechea FJ, Frenkel D, Dobnikar J. Nanoparticle organization in sandwiched polymer brushes. Nano Letters. 14: 2617-22. PMID 24707901 DOI: 10.1021/nl500449x  1
2014 Vácha R, Frenkel D. Stability of bicelles: a simulation study. Langmuir : the Acs Journal of Surfaces and Colloids. 30: 4229-35. PMID 24670113 DOI: 10.1021/la4048159  1
2014 Asenjo D, Paillusson F, Frenkel D. Numerical calculation of granular entropy. Physical Review Letters. 112: 098002. PMID 24655280 DOI: 10.1103/PhysRevLett.112.098002  1
2014 Martinez-Veracoechea FJ, Mognetti BM, Angioletti-Uberti S, Varilly P, Frenkel D, Dobnikar J. Designing stimulus-sensitive colloidal walkers. Soft Matter. 10: 3463-70. PMID 24647520 DOI: 10.1039/c3sm53096e  1
2014 Abeln S, Vendruscolo M, Dobson CM, Frenkel D. A simple lattice model that captures protein folding, aggregation and amyloid formation. Plos One. 9: e85185. PMID 24454816 DOI: 10.1371/journal.pone.0085185  1
2014 Dubacheva GV, Curk T, Mognetti BM, Auzély-Velty R, Frenkel D, Richter RP. Superselective targeting using multivalent polymers. Journal of the American Chemical Society. 136: 1722-5. PMID 24400591 DOI: 10.1021/ja411138s  1
2014 Vácha R, Frenkel D. Simulations suggest possible novel membrane pore structure. Langmuir : the Acs Journal of Surfaces and Colloids. 30: 1304-10. PMID 24059441 DOI: 10.1021/la402727a  1
2014 Frenkel D, Warren PB. Gibbs, Boltzmann, and negative temperatures American Journal of Physics. 83. DOI: 10.1119/1.4895828  1
2014 Martiniani S, Stevenson JD, Wales DJ, Frenkel D. Superposition enhanced nested sampling Physical Review X. 4. DOI: 10.1103/PhysRevX.4.031034  1
2014 Frenkel D. Why colloidal systems can be described by statistical mechanics: Some not very original comments on the Gibbs paradox Molecular Physics. 112: 2325-2329. DOI: 10.1080/00268976.2014.904051  1
2013 Mognetti BM, Sari? A, Angioletti-Uberti S, Cacciuto A, Valeriani C, Frenkel D. Living clusters and crystals from low-density suspensions of active colloids. Physical Review Letters. 111: 245702. PMID 24483677 DOI: 10.1103/PhysRevLett.111.245702  1
2013 Levesque M, Duvail M, Pagonabarraga I, Frenkel D, Rotenberg B. Accounting for adsorption and desorption in lattice Boltzmann simulations. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 88: 013308. PMID 23944584 DOI: 10.1103/PhysRevE.88.013308  1
2013 Jacobs WM, Frenkel D. Predicting phase behavior in multicomponent mixtures. The Journal of Chemical Physics. 139: 024108. PMID 23862930 DOI: 10.1063/1.4812461  1
2013 Albertazzi L, Martinez-Veracoechea FJ, Leenders CM, Voets IK, Frenkel D, Meijer EW. Spatiotemporal control and superselectivity in supramolecular polymers using multivalency. Proceedings of the National Academy of Sciences of the United States of America. 110: 12203-8. PMID 23836666 DOI: 10.1073/pnas.1303109110  1
2013 Asenjo D, Stevenson JD, Wales DJ, Frenkel D. Visualizing basins of attraction for different minimization algorithms. The Journal of Physical Chemistry. B. 117: 12717-23. PMID 23659176 DOI: 10.1021/jp312457a  1
2013 Angioletti-Uberti S, Varilly P, Mognetti BM, Tkachenko AV, Frenkel D. Communication: a simple analytical formula for the free energy of ligand-receptor-mediated interactions. The Journal of Chemical Physics. 138: 021102. PMID 23320658 DOI: 10.1063/1.4775806  1
2013 Frenkel D. Personal Tribute Molecular Physics. DOI: 10.1080/00268976.2013.850185  1
2013 Frenkel D, Asenjo D, Paillusson F. The other entropy Molecular Physics. 111: 3641-3650. DOI: 10.1080/00268976.2013.844868  1
2013 Dobnikar J, Curk T, Martinez-Veracoechea FJ, Frenkel D. Slow colloidal dynamics in polymer brushes Aip Conference Proceedings. 1518: 391-397. DOI: 10.1063/1.4794602  1
2013 Mladek BM, Fornleitner J, Martinez-Veracoechea FJ, Dawid A, Frenkel D. Procedure to construct a multi-scale coarse-grained model of DNA-coated colloids from experimental data Soft Matter. 9: 7342-7355. DOI: 10.1039/c3sm50701g  1
2013 Curk T, Martinez-Veracoechea FJ, Frenkel D, Dobnikar J. Collective ordering of colloids in grafted polymer layers Soft Matter. 9: 5565-5571. DOI: 10.1039/c3sm50486g  1
2012 Paillusson F, Frenkel D. Probing ergodicity in granular matter. Physical Review Letters. 109: 208001. PMID 23215524 DOI: 10.1103/PhysRevLett.109.208001  1
2012 Malgaretti P, Pagonabarraga I, Frenkel D. Running faster together: huge speed up of thermal ratchets due to hydrodynamic coupling. Physical Review Letters. 109: 168101. PMID 23215133 DOI: 10.1103/PhysRevLett.109.168101  1
2012 Vácha R, Martinez-Veracoechea FJ, Frenkel D. Intracellular release of endocytosed nanoparticles upon a change of ligand-receptor interaction. Acs Nano. 6: 10598-605. PMID 23148579 DOI: 10.1021/nn303508c  1
2012 Frenkel D. Colloidal crystals full of invisible vacancies. Proceedings of the National Academy of Sciences of the United States of America. 109: 17728-9. PMID 23077254 DOI: 10.1073/pnas.1215398109  1
2012 Bieler NS, Knowles TP, Frenkel D, Vácha R. Connecting macroscopic observables and microscopic assembly events in amyloid formation using coarse grained simulations. Plos Computational Biology. 8: e1002692. PMID 23071427 DOI: 10.1371/journal.pcbi.1002692  1
2012 Mladek BM, Fornleitner J, Martinez-Veracoechea FJ, Dawid A, Frenkel D. Quantitative prediction of the phase diagram of DNA-functionalized nanosized colloids. Physical Review Letters. 108: 268301. PMID 23005018 DOI: 10.1103/PhysRevLett.108.268301  1
2012 Varilly P, Angioletti-Uberti S, Mognetti BM, Frenkel D. A general theory of DNA-mediated and other valence-limited colloidal interactions. The Journal of Chemical Physics. 137: 094108. PMID 22957556 DOI: 10.1063/1.4748100  1
2012 van Meel JA, Filion L, Valeriani C, Frenkel D. A parameter-free, solid-angle based, nearest-neighbor algorithm. The Journal of Chemical Physics. 136: 234107. PMID 22779581 DOI: 10.1063/1.4729313  1
2012 Angioletti-Uberti S, Mognetti BM, Frenkel D. Re-entrant melting as a design principle for DNA-coated colloids. Nature Materials. 11: 518-22. PMID 22543302 DOI: 10.1038/nmat3314  1
2012 De Simone A, Kitchen C, Kwan AH, Sunde M, Dobson CM, Frenkel D. Intrinsic disorder modulates protein self-assembly and aggregation. Proceedings of the National Academy of Sciences of the United States of America. 109: 6951-6. PMID 22509003 DOI: 10.1073/pnas.1118048109  1
2012 Curk T, de Hoogh A, Martinez-Veracoechea FJ, Eiser E, Frenkel D, Dobnikar J, Leunissen ME. Layering, freezing, and re-entrant melting of hard spheres in soft confinement. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 85: 021502. PMID 22463214 DOI: 10.1103/PhysRevE.85.021502  1
2012 Mognetti BM, Varilly P, Angioletti-Uberti S, Martinez-Veracoechea FJ, Dobnikar J, Leunissen ME, Frenkel D. Predicting DNA-mediated colloidal pair interactions. Proceedings of the National Academy of Sciences of the United States of America. 109: E378-9; author reply. PMID 22308446 DOI: 10.1073/pnas.1119991109  1
2012 Frenkel D. Simulations: The dark side Proceedings of the International School of Physics "Enrico Fermi". 184: 195-227. DOI: 10.3254/978-1-61499-278-3-195  1
2012 Mognetti BM, Leunissen ME, Frenkel D. Controlling the temperature sensitivity of DNA-mediated colloidal interactions through competing linkages Soft Matter. 8: 2213-2221. DOI: 10.1039/c2sm06635a  1
2012 Dorsaz N, Filion L, Smallenburg F, Frenkel D. Spiers memorial lecture: Effect of interaction specificity on the phase behaviour of patchy particles Faraday Discussions. 159: 9-21. DOI: 10.1039/c2fd20070h  1
2012 Sengupta A, Hammond PS, Frenkel D, Boek ES. Error analysis and correction for Lattice Boltzmann simulated flow conductance in capillaries of different shapes and alignments Journal of Computational Physics. 231: 2634-2640. DOI: 10.1016/j.jcp.2011.12.004  1
2011 Vácha R, Martinez-Veracoechea FJ, Frenkel D. Receptor-mediated endocytosis of nanoparticles of various shapes. Nano Letters. 11: 5391-5. PMID 22047641 DOI: 10.1021/nl2030213  1
2011 Vácha R, Frenkel D. Relation between molecular shape and the morphology of self-assembling aggregates: a simulation study. Biophysical Journal. 101: 1432-9. PMID 21943424 DOI: 10.1016/j.bpj.2011.07.046  1
2011 Martinez-Veracoechea FJ, Mladek BM, Tkachenko AV, Frenkel D. Design rule for colloidal crystals of DNA-functionalized particles. Physical Review Letters. 107: 045902. PMID 21867023 DOI: 10.1103/PhysRevLett.107.045902  1
2011 Xu N, Frenkel D, Liu AJ. Direct determination of the size of basins of attraction of jammed solids. Physical Review Letters. 106: 245502. PMID 21770580 DOI: 10.1103/PhysRevLett.106.245502  1
2011 Martinez-Veracoechea FJ, Frenkel D. Designing super selectivity in multivalent nano-particle binding. Proceedings of the National Academy of Sciences of the United States of America. 108: 10963-8. PMID 21690358 DOI: 10.1073/pnas.1105351108  1
2011 Frenkel D, Wales DJ. Colloidal self-assembly: designed to yield. Nature Materials. 10: 410-1. PMID 21602872 DOI: 10.1038/nmat3037  1
2011 Zhu L, Frenkel D, Bolhuis PG. Role of fluctuations in ligand binding cooperativity of membrane receptors. Physical Review Letters. 106: 168103. PMID 21599417 DOI: 10.1103/PhysRevLett.106.168103  1
2011 Yanagishima T, Frenkel D, Kotar J, Eiser E. Real-time monitoring of complex moduli from micro-rheology. Journal of Physics. Condensed Matter : An Institute of Physics Journal. 23: 194118. PMID 21525547 DOI: 10.1088/0953-8984/23/19/194118  1
2011 Filion L, Ni R, Frenkel D, Dijkstra M. Simulation of nucleation in almost hard-sphere colloids: the discrepancy between experiment and simulation persists. The Journal of Chemical Physics. 134: 134901. PMID 21476768 DOI: 10.1063/1.3572059  1
2011 Leunissen ME, Frenkel D. Numerical study of DNA-functionalized microparticles and nanoparticles: explicit pair potentials and their implications for phase behavior. The Journal of Chemical Physics. 134: 084702. PMID 21361551 DOI: 10.1063/1.3557794  1
2011 Abeln S, Frenkel D. Accounting for protein-solvent contacts facilitates design of nonaggregating lattice proteins. Biophysical Journal. 100: 693-700. PMID 21281584 DOI: 10.1016/j.bpj.2010.11.088  1
2011 Mladek BM, Frenkel D. Pair interactions between complex mesoscopic particles from Widom's particle-insertion method Soft Matter. 7: 1450-1455. DOI: 10.1039/c0sm00815j  1
2010 van Meel JA, Sear RP, Frenkel D. Design principles for broad-spectrum protein-crystal nucleants with nanoscale pits. Physical Review Letters. 105: 205501. PMID 21231245 DOI: 10.1103/PhysRevLett.105.205501  1
2010 Pagonabarraga I, Rotenberg B, Frenkel D. Recent advances in the modelling and simulation of electrokinetic effects: bridging the gap between atomistic and macroscopic descriptions. Physical Chemistry Chemical Physics : Pccp. 12: 9566-80. PMID 20607194 DOI: 10.1039/c004012f  1
2010 Bozorgui B, Shundyak K, Cox SJ, Frenkel D. Free-energy-based method for step size detection of processive molecular motors. The European Physical Journal. E, Soft Matter. 31: 411-7. PMID 20405157 DOI: 10.1140/epje/i2010-10590-6  1
2010 Vasbinder JW, Andersson B, Arthur WB, Boasson M, de Boer R, Changeux JP, Domingo E, Eigen M, Fersht A, Frenkel D, Rees M, Groen T, Huber R, Hunt T, Holland J, et al. Transdisciplinary EU science institute needs funds urgently. Nature. 463: 876. PMID 20164899 DOI: 10.1038/463876a  0.48
2010 Rotenberg B, Pagonabarraga I, Frenkel D. Coarse-grained simulations of charge, current and flow in heterogeneous media. Faraday Discussions. 144: 223-43; discussion 3. PMID 20158031 DOI: 10.1039/b901553a  1
2010 Jones R, Jülicher F, Frenkel D. European Physical Journal E: Editorial European Physical Journal E. 31: 1. DOI: 10.1140/epje/i2010-10564-8  1
2010 Martinez-Veracoechea FJ, Bozorgui B, Frenkel D. Anomalous phase behavior of liquid-vapor phase transition in binary mixtures of DNA-coated particles Soft Matter. 6: 6136-6145. DOI: 10.1039/c0sm00567c  1
2010 Verde AV, Frenkel D. Simulation study of micelle formation by bile salts Soft Matter. 6: 3815-3825. DOI: 10.1039/c0sm00011f  1
2009 Osterman N, Poberaj I, Dobnikar J, Frenkel D, Ziherl P, Babi? D. Field-induced self-assembly of suspended colloidal membranes. Physical Review Letters. 103: 228301. PMID 20366126 DOI: 10.1103/PhysRevLett.103.228301  1
2009 Pàmies JC, Cacciuto A, Frenkel D. Erratum: "Phase diagram of Hertzian spheres" [J. Chem. Phys. 131, 044514 (2009)]. The Journal of Chemical Physics. 131: 159903. PMID 19852533  1
2009 Pàmies JC, Cacciuto A, Frenkel D. Phase diagram of Hertzian spheres. The Journal of Chemical Physics. 131: 044514. PMID 19655901 DOI: 10.1063/1.3186742  1
2009 Gribova NV, Fomin YD, Frenkel D, Ryzhov VN. Waterlike thermodynamic anomalies in a repulsive-shoulder potential system. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 79: 051202. PMID 19518442 DOI: 10.1103/PhysRevE.79.051202  1
2009 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. 79: 030201. PMID 19391883 DOI: 10.1103/PhysRevE.79.030201  1
2009 Wang ZJ, Valeriani C, Frenkel D. Homogeneous bubble nucleation driven by local hot spots: a molecular dynamics study. The Journal of Physical Chemistry. B. 113: 3776-84. PMID 19007279 DOI: 10.1021/jp807727p  1
2009 Frenkel D. Materials science: Soft particles feel the squeeze Nature. 460: 465-466. DOI: 10.1038/460465a  1
2008 Abeln S, Frenkel D. Disordered flanks prevent peptide aggregation. Plos Computational Biology. 4: e1000241. PMID 19096500 DOI: 10.1371/journal.pcbi.1000241  1
2008 van Meel JA, Page AJ, Sear RP, Frenkel D. Two-step vapor-crystal nucleation close below triple point. The Journal of Chemical Physics. 129: 204505. PMID 19045871 DOI: 10.1063/1.3026364  1
2008 Allen RJ, Valeriani C, T?nase-Nicola S, ten Wolde PR, Frenkel D. Homogeneous nucleation under shear in a two-dimensional Ising model: cluster growth, coalescence, and breakup. The Journal of Chemical Physics. 129: 134704. PMID 19045113 DOI: 10.1063/1.2981052  1
2008 Bozorgui B, Frenkel D. Liquid-vapor transition driven by bond disorder. Physical Review Letters. 101: 045701. PMID 18764339 DOI: 10.1103/PhysRevLett.101.045701  1
2008 Charbonneau P, Das C, Frenkel D. Dynamical heterogeneity in a glass-forming ideal gas. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 78: 011505. PMID 18763959 DOI: 10.1103/PhysRevE.78.011505  1
2008 Fomin YD, Gribova NV, Ryzhov VN, Stishov SM, Frenkel D. Quasibinary amorphous phase in a three-dimensional system of particles with repulsive-shoulder interactions. The Journal of Chemical Physics. 129: 064512. PMID 18715090 DOI: 10.1063/1.2965880  1
2008 Coluzza I, De Simone A, Fraternali F, Frenkel D. Multi-scale simulations provide supporting evidence for the hypothesis of intramolecular protein translocation in GroEL/GroES complexes. Plos Computational Biology. 4: e1000006. PMID 18463703 DOI: 10.1371/journal.pcbi.1000006  1
2008 Zykova-Timan T, Valeriani C, Sanz E, Frenkel D, Tosatti E. Irreducible finite-size effects in the surface free energy of NaCl crystals from crystal-nucleation data. Physical Review Letters. 100: 036103. PMID 18233006 DOI: 10.1103/PhysRevLett.100.036103  1
2008 Frese RN, Pàmies JC, Olsen JD, Bahatyrova S, van der Weij-de Wit CD, Aartsma TJ, Otto C, Hunter CN, Frenkel D, van Grondelle R. Protein shape and crowding drive domain formation and curvature in biological membranes. Biophysical Journal. 94: 640-7. PMID 17827217 DOI: 10.1529/biophysj.107.116913  1
2008 Rotenberg B, Pagonabarraga I, Frenkel D. Dispersion of charged tracers in charged porous media Epl. 83. DOI: 10.1209/0295-5075/83/34004  1
2008 Sanz E, Valeriani C, Vissers T, Fortini A, Leunissen ME, Van Blaaderen A, Frenkel D, Dijkstra M. Out-of-equilibrium processes in suspensions of oppositely charged colloids: Liquid-to-crystal nucleation and gel formation Journal of Physics Condensed Matter. 20. DOI: 10.1088/0953-8984/20/49/494247  1
2008 Mladek BM, Charbonneau P, Likos CN, Frenkel D, Kahl G. Multiple occupancy crystals formed by purely repulsive soft particles Journal of Physics Condensed Matter. 20. DOI: 10.1088/0953-8984/20/49/494245  1
2008 Van Meel JA, Arnold A, Frenkel D, Portegies Zwart SF, Belleman RG. Harvesting graphics power for MD simulations Molecular Simulation. 34: 259-266. DOI: 10.1080/08927020701744295  1
2008 Ghiringhelli LM, Valeriani C, Los JH, Meijer EJ, Fasolino A, Frenkel D. State-of-the-art models for the phase diagram of carbon and diamond nucleation Molecular Physics. 106: 2011-2038. DOI: 10.1080/00268970802077884  1
2008 Frenkel D. Random organization: Ordered chaos Nature Physics. 4: 345-346. DOI: 10.1038/nphys973  1
2007 Mladek BM, Charbonneau P, Frenkel D. Phase coexistence of cluster crystals: beyond the Gibbs phase rule. Physical Review Letters. 99: 235702. PMID 18233385 DOI: 10.1103/PhysRevLett.99.235702  1
2007 Arnold A, Bozorgui B, Frenkel D, Ha BY, Jun S. Unexpected relaxation dynamics of a self-avoiding polymer in cylindrical confinement. The Journal of Chemical Physics. 127: 164903. PMID 17979390 DOI: 10.1063/1.2799513  1
2007 Ghiringhelli LM, Valeriani C, Meijer EJ, Frenkel D. Local structure of liquid carbon controls diamond nucleation. Physical Review Letters. 99: 055702. PMID 17930770 DOI: 10.1103/PhysRevLett.99.055702  1
2007 Sanz E, Valeriani C, Frenkel D, Dijkstra M. Evidence for out-of-equilibrium crystal nucleation in suspensions of oppositely charged colloids. Physical Review Letters. 99: 055501. PMID 17930766 DOI: 10.1103/PhysRevLett.99.055501  1
2007 Rekvig L, Frenkel D. Molecular simulations of droplet coalescence in oil/water/surfactant systems. The Journal of Chemical Physics. 127: 134701. PMID 17919037 DOI: 10.1063/1.2780865  1
2007 Valeriani C, Allen RJ, Morelli MJ, Frenkel D, Rein ten Wolde P. Computing stationary distributions in equilibrium and nonequilibrium systems with forward flux sampling. The Journal of Chemical Physics. 127: 114109. PMID 17887830 DOI: 10.1063/1.2767625  1
2007 Charbonneau P, Frenkel D. Gas-solid coexistence of adhesive spheres. The Journal of Chemical Physics. 126: 196101. PMID 17523839 DOI: 10.1063/1.2737051  1
2007 Bozorgui B, Frenkel D. Lattice-based Monte Carlo method for telechelic chain molecules. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 75: 036708. PMID 17500827 DOI: 10.1103/PhysRevE.75.036708  1
2007 Valeriani C, Wang ZJ, Frenkel D. Comparison of simple perturbation-theory estimates for the liquid-solid and the liquid-vapor interfacial free energies of Lennard-Jones systems Molecular Simulation. 33: 1023-1028. DOI: 10.1080/08927020701579352  1
2007 Combe N, Frenkel D. Simple off-lattice model to study the folding and aggregation of peptides Molecular Physics. 105: 375-385. DOI: 10.1080/00268970601175483  1
2007 Schmatko T, Bozorgui B, Geerts N, Frenkel D, Eiser E, Poon WCK. A finite-cluster phase in λ-DNA-coated colloids Soft Matter. 3: 703-706. DOI: 10.1039/b618028k  1
2006 Reboux S, Capuani F, Frenkel D. Lattice-Boltzmann Simulations of Ionic Current Modulation by DNA Translocation. Journal of Chemical Theory and Computation. 2: 495-503. PMID 26626660 DOI: 10.1021/ct050340g  1
2006 Prinsen P, Pàmies JC, Odijk T, Frenkel D. Application of the optimized Baxter model to the hard-core attractive Yukawa system. The Journal of Chemical Physics. 125: 194506. PMID 17129122 DOI: 10.1063/1.2390699  1
2006 Frenkel D. Materials science. Colloidal encounters: a matter of attraction. Science (New York, N.Y.). 314: 768-9. PMID 17082442 DOI: 10.1126/science.1135544  1
2006 Frenkel D. Physical chemistry: seeds of phase change. Nature. 443: 641. PMID 17035987 DOI: 10.1038/443641a  1
2006 Frenkel D. Waste-recycling Monte Carlo Lecture Notes in Physics. 703: 127-137. DOI: 10.1007/3-540-35273-2_4  1
2005 Cacciuto A, Frenkel D. Stresses inside critical nuclei. The Journal of Physical Chemistry. B. 109: 6587-94. PMID 16851739 DOI: 10.1021/jp0456483  1
2005 Cacciuto A, Frenkel D. Simulation of colloidal crystallization on finite structured templates. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 72: 041604. PMID 16383393 DOI: 10.1103/PhysRevE.72.041604  1
2005 Ghiringhelli LM, Los JH, Meijer EJ, Fasolino A, Frenkel D. Modeling the phase diagram of carbon. Physical Review Letters. 94: 145701. PMID 15904077 DOI: 10.1103/PhysRevLett.94.145701  1
2005 van Ketel W, Das C, Frenkel D. Structural arrest in an ideal gas. Physical Review Letters. 94: 135703. PMID 15904005 DOI: 10.1103/PhysRevLett.94.135703  0.6
2005 Schilling T, Pronk S, Mulder B, Frenkel D. Monte Carlo study of hard pentagons. Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics. 71: 036138. PMID 15903524 DOI: 10.1103/PhysRevE.71.036138  1
2005 Koster G, Cacciuto A, Derényi I, Frenkel D, Dogterom M. Force barriers for membrane tube formation. Physical Review Letters. 94: 068101. PMID 15783778 DOI: 10.1103/PhysRevLett.94.068101  1
2004 Cacciuto A, Auer S, Frenkel D. Breakdown of classical nucleation theory near isostructural phase transitions. Physical Review Letters. 93: 166105. PMID 15525010 DOI: 10.1103/PhysRevLett.93.166105  1
2004 Blaak R, Auer S, Frenkel D, Löwen H. Crystal nucleation of colloidal suspensions under shear. Physical Review Letters. 93: 068303. PMID 15323669 DOI: 10.1103/PhysRevLett.93.068303  1
2004 Blaak R, Mulder BM, Frenkel D. Cubatic phase for tetrapods. The Journal of Chemical Physics. 120: 5486-92. PMID 15267423 DOI: 10.1063/1.1649733  1
2004 Miller MA, Frenkel D. Phase diagram of the adhesive hard sphere fluid. The Journal of Chemical Physics. 121: 535-45. PMID 15260575 DOI: 10.1063/1.1758693  1
2004 Auer S, Frenkel D. Quantitative prediction of crystal-nucleation rates for spherical colloids: a computational approach. Annual Review of Physical Chemistry. 55: 333-61. PMID 15117256 DOI: 10.1146/annurev.physchem.55.091602.094402  0.4
2004 Cacciuto A, Auer S, Frenkel D. Onset of heterogeneous crystal nucleation in colloidal suspensions. Nature. 428: 404-6. PMID 15042084 DOI: 10.1038/nature02397  1
1995 Dijkstra M, Frenkel D. Simulation study of the isotropic-to-nematic transitions of semiflexible polymers. Physical Review. E, Statistical Physics, Plasmas, Fluids, and Related Interdisciplinary Topics. 51: 5891-5898. PMID 9963327  1
1994 Dijkstra M, Frenkel D. Evidence for entropy-driven demixing in hard-core fluids. Physical Review Letters. 72: 298-300. PMID 10056109  1
1994 Dijkstra M, Frenkel D. Simulation study of a two-dimensional system of semiflexible polymers. Physical Review. E, Statistical Physics, Plasmas, Fluids, and Related Interdisciplinary Topics. 50: 349-357. PMID 9961974  1
1992 Smit B, Mooij GC, Frenkel D. Comment on "Determination of the chemical potential of polymeric systems from Monte Carlo simulations" Physical Review Letters. 68: 3657. PMID 10045762  1
1991 Meijer EJ, Frenkel D. Computer simulation of polymer-induced clustering of colloids. Physical Review Letters. 67: 1110-1113. PMID 10045078 DOI: 10.1103/PhysRevLett.67.1110  1
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