Mohanty Lab of Boston College


Gibbs, J. H.; Bagchi, B.; Mohanty, U. “Bimodality and Cluster-Size Distribution in a Finite Lennard-Jones System.” Phys. Rev. B 24, 2893-2902 (1981).

Berkcan, E.; Cooper, L. N.; Mohanty, U. “The Bethe Ansatz, Periodic Boundary Conditions and Relations Between Various Models.” Phys. Lett. A 81, 172-174(1981).

Mohanty, U.; Bagchi, B.; Gibbs, J. H. “Bimodality and Long-Range Order in Ideal Bose Systems.” J. Stat. Phys. 28, 685-710 (1981).

Shuler, K. E.; Mohanty, U. “Random Walk Properties from Bond Enumeration: Anisotropic Diffusion in Lattices with Periodic and Randomly Distributed Traps.” Proc. Nat. Acad. Sci. (USA) 78, 6576-6578 (1981).

Mohanty, U. “Properties of Mayer Cluster Expansion.” J. Math. Phys. 23, 1489-1492 (1982).

Bagchi, B.; Mohanty, U. “Spatial Bose-Einstein Condensation: Universality in Cluster Size Distributions.” Phys. Lett. A 91, 4515-4518 (1982).

Mohanty, U.; Shuler, K. E.; Oppenheim, I. “On the Exact and Phenomenological Langevin Equations for a Harmonic Oscillator in a Fluid.” Physica A 115, 1-20 (1982).

Lindenberg, K.; Mohanty, U.; Seshadri, V. “Hamiltonian Model for the Brownian Motion of a Rigid Rotor.” Physica A 119, 1-16 (1983).

Mohanty, U.; Rice, S. A. “A Generalization of the Ewald-Oseen Extinction Theorem: Relation to Surface Polariton Modes.” J. Chem. Phys. 78, 7386-7389 (1983).

Mohanty, U.; Rice, S. A. “X-ray Total External Reflectance-Diffraction as a Probe of the Structure of the Liquid Vapor Interface.” J. Chem. Phys. 79, 2482-2486 (1983).

Mohanty, U.; Rice, S. A. “Theory of Electronic Conduction in the Liquid Vapor Interface of a Simple Metal. J. Chem. Phys. 79, 5652-5657 (1983).

Bagchi, B.; Cerjan, C.; Mohanty, U.; Rice, S. A. “Crystallization of the Classical One- Component Plasma.” Phys. Rev. B 29, 2857-2860 (1984).

Jones, G. L.; Mohanty, U. “A Density Functional Variational Treatment of the Hard-Sphere Transition.” Mol. Phys. 54, 1241-1252 (1985).

Lipkin, M.; Rice, S. A.; Mohanty, U. “The Elastic Constants of Condensed Matter: A Direct Correlation Function Approach.” J. Chem. Phys. 82, 472-479 (1985).

Mohanty, U. “Inferences from a Microscopic Model for the Stokes-Einstein Relation.” Phys. Rev. 32, 3055-3058 (1985).

Phillips, P.; Mohanty, U. “The Correlation Length Divergence of Tolman's Length.” J. Chem. Phys. 83, 6392-6395 (1985).

Bawendi, M.; Freed, K. F.; Mohanty, U. “A Lattice Model for Interacting, Self-Avoiding Polymers with Controlled Length Distribution.” J. Chem. Phys. 84,7036-7046(1986).

Rice, S. A.; Gryko, J.; Mohanty, U. “Structure and Properties of the Liquid-Vapor Interface of a Simple Metal.” in Progress in Liquid Physics, Ed. Croxton, C. (Wiley, 1986).

Thacker, T. S.; Mou, C. Y.; Mohanty, U.; Lin, J. “The Limiting Concentration Dependence of the Heat of Transport in Electrolyte Solution.” J. Chem. Phys. 84, 6401-6409 (1986).

Mohanty, U. “Low Temperature Relaxation in Glassy Systems.” Phys. Rev. A 34, 4993-4999 (1986).

Mohanty, U.; Jones, G. “Density Wave Theory of Liquid-Solid Interface.” Ann. N.Y. Acad. 484, 316-317 (1986).

Jaric, M.; Mohanty, U. “Martensitic Instability of an Icosahedral Quasicrystal.” Phys. Rev. Lett. 58, 230-233 (1987).

Jaric, M.; Mohanty, U. “Elastic Constants of Hard-Sphere Crystal.” Phys. Rev. Lett. 59, 1170 (1987).

Bawendi, M.; Freed, K.; Mohanty, U. “A Lattice Field Theory for Polymer Systems With Nearest-Neighbor Interaction Energies.” J. Chem. Phys. 87, 5534-5540 (1987).

Jaric, M.; Mohanty, U. “Density Functional Theory of Elastic Moduli: Hard Sphere and Lennard-Jones Crystals.” Phys. Rev. B 37, 4441-4457 (1988).

Mohanty, U.; Singh, U. P.; Jones, G. “Density Functional Theory of Freezing and Solids.” Physics Today 41, S17-S18 (1988).

Mohanty, U. “Configurational Entropy Dependence of Cooperative Relaxation Properties in Glass Forming Liquids.” J. Chem. Phys. 86, 3778-3782 (1988).

Mohanty, U. “Quantum Mechanical Rate Constants in the Presence of Linear Dissipative Mechanism.” J. Chem. Phys. 88, 3057-3060 (1988).

Singh, U. P.; Mohanty, U.; Singh, Y. “Molecular Theory of Freezing Transition of Hard Ellipsoids and Hard Dumbbell Molecules.” Phys. Rev. A 38, 4377-4380 (1988).

Jaric, M.; Mohanty, U. “Density Functional Theory of Elastic Constants of Quasi-Crystals.” Phys. Rev. B 38, 9434 (1988).

Bhattacharya, I.; Singh, U. P.; Mohanty, U. “On the Structure Factor of a Hard-Sphere Solid.” J. Chem. Phys. 90, 5880-5881 (1989).

Singh, U. P.; Mohanty, U.; Singh, Y. “Density Functional Theory of Freezing of Molecular Liquids.” Physica A 158, 817-841 (1989).

Singh, U. P.; Mohanty, U.; Sinha, S. “Perturbation Theory of Fluids of Axisymmetric Molecules: Gaussian Overlap and Modified Overlap Fluid Model.” Mol. Phys. 68, 1047-1066 (1989).

Koutselos, A.; Mohanty, U. “Model Molecular Hamiltonians: A Renormalization Group Approach to Atoms and Molecules.” Physica A 166, 99-114 (1990).

Mohanty, U. “Cooperative Relaxation in Glass Forming Liquids.” Physica A 162, 362-376 (1990).

Mohanty, U. “On the Temperature Dependence of Cooperative Relaxation in Glass Forming Liquids.” J. Chem. Phys. 93, 8399 (1990).

Mohanty, U. “On the Nature of Supercooled and Glassy States of Matter.” Physica A 177, 345-355 (1991).

Bhattacharya, I.; Mohanty, U.; Singh, U. P. “ A Molecular Theory of Melting.” Physica A 175, 473-484 (1991).

Bhattacharya, I.; Mohanty, U. “Statistical Mechanics of Line-Liquids.” J. Chem. Phys. 99, 6461-6464 (1993).

Montero, M. R.; Mohanty, U.; Brey, B. “Topological Characteristics of Supercooled Polymeric Liquids.” J. Chem. Phys. 99, 9979-9983 (1993).

Mohanty, U. “Supercooled Liquids.” Advances in Chemical Physics, Vol. 89, Chapter 2, pages 89-158, ed. Prigogine, I.; Rice, S. A. (John Wiley & Sons, Inc., 1994).

Mohanty, U. “Inhomogeneity and Relaxation in Supercooled Liquids.” J. Chem. Phys. 100, 5905-5909 (1994).

Mohanty, U.; Oppenheim, I.; Taubes, C. H. “Low Temperature Relaxation and Entropic Barriers in Supercooled Liquids.” Science 266, 425-427 (1994).

Bleil, R.; Mohanty, U. “Statistical Mechanics of Membranes: Charge Effects on the Stability of Globular Proteins.” J. Phys. Chem. 99, 2915 (1995).

Mohanty, U.; Zhao, Y. “Polarization of Counterions in Polyelectrolytes.” Biopolymers 38, 377-388 (1996).

Mohanty, U.; Ninham, B.W.; Oppenheim, I. “Dressed Polyions, Counterion Condensation and Adsorption Excess in Polyelectrolytes.” Proc. Nat. Acad. Sci. (USA) 93, 4342-4344 (1996).

Mohanty, U. “Entropic Approach to Relaxation Behavior in Glass-Forming Liquids.” in Supercooled Liquids: Advances and Novel Applications, p. 95-109, Ed. Fourkas, J. T.; et. al. (ACS Symposium Series 676, 1997).

Manning, G. S.; Mohanty, U. “Counterion Condensation on Ionic Oligomers.” Physica A 247, 196-204 (1997).

Fourkas, J. T.; Mohanty, U.; Kivelson, D.; Nelson, K. “A Brief Introduction to Supercooled Liquids.” Supercooled Liquids: Advances and Novel Applications, p. 2-12. Ed. Fourkas, J. T.; et al. (ACS Symposium Series 676, 1997).

Deschenes, L. A.; Zilaro, P.; Muller, L. J.; Fourkas, J. T.; Mohanty, U. “Quantitative Measure of Hydrophobicity: Experiment and Theory.” J. Phys. Chem. B 101, 5777-5779 (1997).

Supercooled Liquids: Advances and Novel Applications, Ed. Fourkas, J. T.; et al. (ACS Symposium Series 676, 1997).

Mohanty, U. “Polarization of Counterions in a Strongly Coupled Coulombic System: DNA.” in Proceedings of Strongly Coupled Coulomb Systems, Ed. Kalman, G. et al. (Plenum. Press, 1998).

Deschenes, L. A.; Barrett, J.; Muller, L. J.; Fourkas, J. T.; Mohanty, U. “Inhibition of Bubble Coalescence in Aqueous Solutions. I. Electrolytes.” J. Phys. Chem. B 102, 5115-5119 (1998).

Mohanty, U.; Stellwagen, N. “Free Solution Mobility of Oligomeric DNA.” Biopolymers 49, 209-214 (1998).

Mohanty, U.; Searls, T.; McLaughlin, L. W. “Anomalous Migration of Short Sequences of Nucleic Acids in Polyacrylamide Gels: Prediction and Experiment.” J. Am. Chem. Soc. 120, 8275-8276 (1998).

Diezemann, G.; Mohanty, U.; Oppenheim, I. “Slow Secondary Relaxation in a Free-Energy Landscape Model for Relaxation in Glass-Forming Liquids.” Phys. Rev. E 59, 2067-2083 (1999).

Loughnane, B. J.; Scodinu, A.; Farrer, R. A.; Fourkas, J. T.; Mohanty, U. “Exponential Intermolecular Dynamics in Optical Kerr Effect Spectroscopy of Small-Molecule Liquids.” J. Chem. Phys. 111, 2686 (1999).

Mohanty, U.; Searls, T.; McLaughlin, L. W. “Migration Effects for Small Phosphate Labeled Single Stranded DNA Fragments in Gels: Prediction and Experiment.” J. Am. Chem. Soc. 122, 1225-1226 (2000).

Mohanty, U.; Diezemann, G.; Oppenheim, I. “On the Nature of Slow Beta Relaxation in Supercooled Liquids.” J. Phys. A. Cond. Matt. 12, 6431-6435 (2000).

Mohanty, U.; Diezemann, G.; Fourkas, J. “On the Relationships Among Special Temperatures for Supercooled Liquids: A Configurational Space Analysis.” J. Chem. Phys. 113, 3719-3722 (2000).

Mohanty, U.; Searls, T.; McLaughlin, L. W. “Anomalous Migration of Short Sequences of DNA: Comparison of Theory and Experiment.” J. Biomol Struct. Dyn. Conversation 11, Issue#2, 371-375 (2000).

Mohanty, U.; McLaughlin, L. W. “Anomalous Migration of DNA in Gels, and the Polyelectrolyte Nature of DNA.” Ed. Radeva, Ts. (Marcek Dekker, 2001).

Mohanty, U.; Craig, N.; Fourkas, J. T. “On a Relationship Between Dynamical and Equilibrium Characteristics of Glass-Forming Liquids.” Phys. Rev. E 64, 10501-10502 (2001).

Mohanty, U.; Craig, N.; Fourkas, J. T. “Relationship Between Kinetics and Thermodynamics of Supercooled liquids.” J. Chem. Phys. 114, 10577-10578 (2001).

Teeter, M. M.; Yamano, A.; Stec, B.; Mohanty, U. “On the Nature of Glassy State of Matter in a Hydrated Protein: Relation to Protein Function.” Proc. Nat. Acad. (USA ) 98, 11242-11247 (2001).

Mohanty, U. “On a Connection Between Replica Symmetry Breaking Parameter and Narayanaswamy-Gardon Non-Linear Parameter.” in Liquid Dynamics: Experiment, Simulation, and Theory. p. 249-255, Ed. Fourkas, J. T. (ACS Symposium Series 820, 2002).

Mohanty. U.; McLaughlin, L. W. “On the Characteristics of Migration of Oligomeric DNA in Polyacrylamide Gels and in Free Solution.” Ann. Rev. Phys. Chem. 52, 93-106 (2002).

Tanaka, H.; Mohanty, U. On the Debye-Waller Factor of Hexagonal Ice: A Computer Simulation Study” J. Am. Chem. Soc. 124, 8085-8089 (2002).

Spasic. A.; Yang, K.; Mohanty, U. “Towards a Model for the Mobility of Circularly Permuted DNA Fragments in Gel.” Ed. Somasundaran, S.; Markovic, M. ACS Symposium Series 878 (2004).

Mohanty, U.; Taubes, C. H. “Dynamics of Bent DNA Molecules in Polyacrylamide Gels.” J. Phys. Chem. B 107, 6187 (2003).

Gerardin, J.; Mohanty, S.; Mohanty, U. “Dynamics of Supercooled Liquids: Universality of Relaxation Time at Cross-Over Temperature” J. Chem. Phys. 119, 4473 (2003).

Haran, T. E.; Cohen, I.; Spasic, A.; Yang, K.; Mohanty, U. “Dynamics of Curved DNA Molecules: Prediction and Experiment.” J. Am. Chem. Soc. 125, 11160 (2003).

Spasic, A.; Hess, G.; Becker, K. A.; Hansen, M.; Bleil, R.; Mohanty, U. “Asymmetric Charge Neutralization of DNA.” Ed. Stellwagen, N. C. and Mohanty, U. ACS Symposium Series 884, 133-143 (2004).

Haran, T. E.; Cohen, I.; Spasic, A.; Yang, K.; Mohanty, U. “Characteristics of Migration Patterns of DNA Oligomers in Gels and its Relationship to the Question of Intrinsic DNA Bending.” J. Am. Chem. Soc. 126, 2372-2377 (2004).

Stellwagen, N. C. Mohanty, U. “Curvature and Deformation of Nucleic Acids: Overview.” ACS Symposium Series 884, 1-11 (2004).

Mohanty, U.; “Fragility Metrics in Glass-Forming Liquids.” Adv. Chem.Phys. 129, 73-105 (2004).

Mohanty, U.; Spasic, A.; Kim, H. D.; Chu, S. “Ion Atmosphere of Three-Way Junction Nucleic Acid.” J. Phys. Chem. B. 109, 21267-21272 (2005).

Schultes, E.; Spasic, A.; Mohanty, U.; Bartel, D. “Collapse of Randomly Generated RNA Sequences.” Nature and Structural Biology 12, 1130-1136 (2005).

Taubes, C. H.; Mohanty, U.; Chu, S. “Ion Atmosphere Around Nucleic Acid.” J. Phys. Chem. B. 109, 21267-21272 (2005).

Casalini, R.; Mohanty, U.; Roland, C. M. “Thermodynamic Interpretation of the Scaling Dynamics of Supercooled Liquids.” J. Chem. Phys. 125, 014505-014513 (2006).

Mohanty, U.; Spasic, A. “Counterion Condensation in Nucleic acid.” Adv. Chem. Phys. Volume 139, 139-176 (2008).

Spasic, A.; Sanyasi, S.; Mohanty, U.; Chu, S. “Polyelectrolyte Behavior and Kinetics of aa-tRNA on the Ribosome.” J. Phys. Chem. B 125, 014505-014513 (2008).

Mohanty, U. “Fluctuation Corrections to Cooperative Relaxation in Deeply Supercooled Liquids.” Rheology 1-3 (2008).

Guo, Z.; Taubes, C. H.; Maher, J; Mohanty, U. “DNA on a Tube: Electrostatic Contribution to DNA Stiffness.” J. Phys. Chem.B 112, 16163-16169 (2008).

Haran, T.; Mohanty, U. “The Unique Structure of A-tracts and Intrinsic DNA Bending.” Q. Rev. Biophys. 42, 41-81 (2009).

Roberts, M.; Mohanty, U.; Redfield, A. “Phospholipids Reorientation at the Lipid/Water Interface Measured by High Resolution 31P NMR Field Cycling Spectroscopy.” Biophys. J. 97, 132-141 (2009).

Guo, Z.; Mohanty, U.; Nohere, J.; Sawyer, T.; Sherman, W.; Krilov, G. “Probing the alpha-helical stability of p53 peptides: molecular dynamics simulations and analysis.” Chem. Biol. Drug. Design. 75, 348-359 (2010).

Guo, Z.; Gibson, M.; Sanyasi, S.; Chu, S.; Mohanty, U. “Role of large thermal fluctuations and magnesium ions in t-RNA selectivity of the ribosome.” Proc. Nat. Acad. USA. 108, 3947-51 (2011).

Hayes, R. L.; Noel, J. K.; Mohanty, U.; Whitford, P.; Hennelly, S.; Onuchic, J. N.; Sanbonmatsu, K. “Magnesium Fluctuations Modulate RNA Dynamics in SAM-I Riboswitch.” J. Am. Chem. Soc. 134, 12043-12053 (2012).

Guo, Z.; Streu, K.; Krilov, G.; Mohanty, U. “Probing the Origin of Single and Double Stapled p53 Analogs Bound to MDM2.” Chem. Biol. Drug. Design 83, 631-642(2014).

(91) Hayes, R. L.; Noel, J. K.; Whitford, P.C.; Mohanty, U.; Sanbonmatsu, K.; Onuchic, J. N. “ Reduced Model Captures Mg2+-RNA Interaction Free Energy of Riboswitches.” Biophysical J. 106, 1508-1519 (2014).

(92) Hayes, R. L.; Noel, J. K.; Mandic, A.; Whitford, P.C.; Sanbonmatsu, K.; Mohanty, U.; Onuchic, J. N. “Generalized Manning Condensation Model Captures the RNA Ion Atmosphere.” Phys. Rev. Lett. 114, 258105-1 258105-6 (2015).

Levi, M; Bandarkar, P.; Yang, J. H. ; Wang, A.; Mohanty, U.; Noel, J. K.; Whitford, P. C. “ Using SMOG 2 to Stimulate Large Assemblies with Structure-Based Models.” (in press).

Lammert, H.; Wang, A.; Mohanty, U.; Onuchic, J. “RNA is a Complex Polyelectrolyte with Spatial and Temporal Heterogeneity of its Landscape.” (in press).


Supercooled Liquids: Advances and Novel Applications, Ed. Fourkas, J. T.; Kivelson, D.; Mohanty, U.; Nelson, K. A., American Chemical Society Symposium Series 676, 1-352 (1997).

Sequence Dependence Curvature and Deformation in Nucleic Acid and Protein Nucleic Acid Complexes, Ed. Stellwagen, N. C.; Mohanty, U., American Chemical Society Symposium Series 884, 1-251 (2004).

Chemical Thermodynamics, I. Oppenheim, K. Lindenberg, U. Mohanty (Garland Publishing, unpublished, 2003). Over 300 pp.

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