Publications

2018
Sagiv, L. ; Hirshberg, B. ; Gerber, R. B. . Anharmonic Vibrational Spectroscopy Calculations Using The Ab Initio Csp Method: Applications To H2Co3, (H2Co3)2, H2Co3-H2O And Isotopologues. Chemical Physics 2018. Publisher's Version
Hirshberg, B. ; Gerber, R. B. ; Krylov, A. I. . Autocorrelation Of Electronic Wave-Functions: A New Approach For Describing The Evolution Of Electronic Structure In The Course Of Dynamics. Molecular Physics 2018, 116, 2512-2523. Publisher's Version
Shemesh, D. ; Gerber, R. B. . Molecular Dynamics Of Photoinduced Reactions Of Acrylic Acid: Products, Mechanisms, And Comparison With Experiment. Journal of Physical Chemistry Letters 2018, 9, 527-533.
Hirshberg, B. ; E. Molina, R. ; Götz, A. W. ; Hammerich, A. D. ; Nathanson, G. M. ; Bertram, T. H. ; Johnson, M. A. ; Gerber, R. B. . N2O5 At Water Surfaces: Binding Forces, Charge Separation, Energy Accommodation And Atmospheric Implications. Physical Chemistry Chemical Physics 2018, 20, 17961-17976. Publisher's Version
2017
Hirshberg, B. ; Gerber, R. B. . Mean-Field Methods For Time-Dependent Quantum Dynamics Of Many-Atom Systems. In Advances in Quantum Chemistry: Ratner Volume; Sabin, J. R. ; Brandas, E. J., Eds.; 2017; Vol. 75, pp. 1-26.
Chen, H. ; Ezell, M. J. ; Arquero, K. D. ; Varner, M. E. ; Dawson, M. L. ; Gerber, R. B. ; Finlayson-Pitts, B. J. . New Particle Formation And Growth From Methanesulfonic Acid, Trimethylamine And Water. Physical Chemistry Chemical Physics 2017, 19, 4893-4893.
Arquero, K. D. ; Xu, J. ; Gerber, R. B. ; Finlayson-Pitts, B. J. . Particle Formation And Growth From Oxalic Acid, Methanesulfonic Acid, Trimethylamine And Water: A Combined Experimental And Theoretical Study. Physical Chemistry Chemical Physics 2017, 19, 28286-28301.
Aregahegn, K. Z. ; Shemesh, D. ; Gerber, R. B. ; Finlayson-Pitts, B. J. . Photochemistry Of Thin Solid Films Of The Neonicotinoid Imidacloprid On Surfaces. Environmental Science & Technology 2017, 51, 2660-2668.
Arquero, K. D. ; Gerber, R. B. ; Finlayson-Pitts, B. J. . The Role Of Oxalic Acid In New Particle Formation From Methanesulfonic Acid, Methylamine, And Water. Environmental Science & Technology 2017, 51, 2124-2130.
Kelleher, P. J. ; Menges, F. S. ; DePalma, J. W. ; Denton, J. K. ; Johnson, M. A. ; Weddle, G. H. ; Hirshberg, B. ; Gerber, R. B. . Trapping And Structural Characterization Of The Xno2 Center Dot No3- (X = Ci, Br, I) Exit Channel Complexes In The Water-Mediated X- + N2O5 Reactions With Cryogenic Vibrational Spectroscopy. Journal of Physical Chemistry Letters 2017, 8, 4710-4715.
Hirshberg, B. ; Sagiv, L. ; Gerber, R. B. . Approximate Quantum Dynamics Using Ab Initio Classical Separable Potentials: Spectroscopic Applications. Journal of Chemical Theory and Computation 2017, 13, 982-991. Publisher's Version
Zakai, I. ; Varner, M. E. ; Gerber, R. B. . Concerted Transfer Of Multiple Protons In Acid-Ater Clusters: (Hcl)(H2O) (2) And (Hf)(H2O) (4). Physical Chemistry Chemical Physics 2017, 19, 20641-20646.
Roy, T. Kanchan; Nagornova, N. S. ; Boyarkin, O. V. ; Gerber, R. B. . A Decapeptide Hydrated By Two Waters: Conformers Determined By Theory And Validated By Cold Ion Spectroscopy. Journal of Physical Chemistry A 2017, 121, 9401-9408.
Naoum, J. N. ; Chandra, K. ; Shemesh, D. ; Gerber, R. B. ; Gilon, C. ; Hurevich, M. . Dmap-Assisted Sulfonylation As An Efficient Step For The Methylation Of Primary Amine Motifs On Solid Support. Beilstein Journal of Organic Chemistry 2017, 13, 806-816.
Xu, J. ; Finlayson-Pitts, B. J. ; Gerber, R. B. . Nanoparticles Grown From Methanesulfonic Acid And Methylamine: Microscopic Structures And Formation Mechanism. Physical Chemistry Chemical Physics 2017, 19, 31949-31957.
Xu, J. ; Finlayson-Pitts, B. J. ; Gerber, R. B. . Proton Transfer In Mixed Clusters Of Methanesulfonic Acid, Methylamine, And Oxalic Acid: Implications For Atmospheric Particle Formation. Journal of Physical Chemistry A 2017, 121, 2377-2385.
2016
Kalinowski, J. ; Foreman, E. S. ; Kapnas, K. M. ; Murray, C. ; Rasanen, M. ; R Gerber, B. . Dynamics And Spectroscopy Of Ch2Oo Excited Electronic States. PHYSICAL CHEMISTRY CHEMICAL PHYSICS 2016, 18, 10941-10946.Abstract
The excited states of the Criegee intermediate CH2OO are studied in molecular dynamics simulations using directly potentials from multi-reference perturbation theory (MR-PT2). The photoexcitation of the species is simulated, and trajectories are propagated in time on the excited state. Some of the photoexcitation events lead to direct fragmentation of the molecule, but other trajectories describe at least several vibrations in the excited state, that may terminate by relaxation to the ground electronic state. Limits on the role of non-adiabatic contributions to the process are estimated by two different simulations, one that forces surface-hopping at potential crossings, and another that ignores surface hopping altogether. The effect of non-adiabatic transitions is found to be small. Spectroscopic implications and consequences for the interpretation of experimental results are discussed.
Roy, T. Kanchan; Sharma, R. ; R Gerber, B. . First-Principles Anharmonic Quantum Calculations For Peptide Spectroscopy: Vscf Calculations And Comparison With Experiments. PHYSICAL CHEMISTRY CHEMICAL PHYSICS 2016, 18, 1607-1614.Abstract
First-principles quantum calculations for anharmonic vibrational spectroscopy of three protected dipeptides are carried out and compared with experimental data. Using hybrid HF/MP2 potentials, the Vibrational Self-Consistent Field with Second-Order Perturbation Correction (VSCF-PT2) algorithm is used to compute the spectra without any ad hoc scaling or fitting. All of the vibrational modes (135 for the largest system) are treated quantum mechanically and anharmonically using full pair-wise coupling potentials to represent the interaction between different modes. In the hybrid potential scheme the MP2 method is used for the harmonic part of the potential and a modified HF method is used for the anharmonic part. The overall agreement between computed spectra and experiment is very good and reveals different signatures for different conformers. This study shows that first-principles spectroscopic calculations of good accuracy are possible for dipeptides hence it opens possibilities for determination of dipeptide conformer structures by comparison of spectroscopic calculations with experiment.
Knaanie, R. ; Sebek, J. ; Tsuge, M. ; Myyllys, N. ; Khriachtchev, L. ; Rasanen, M. ; Albee, B. ; Potma, E. O. ; R Gerber, B. . Infrared Spectrum Of Toluene: Comparison Of Anharmonic Isolated-Molecule Calculations And Experiments In Liquid Phase And In A Ne Matrix. JOURNAL OF PHYSICAL CHEMISTRY A 2016, 120, 3380-3389.Abstract
First-principles anharmonic calculations are carried out for the CH stretching vibrations of isolated toluene and compared with the experimental infrared spectra of isotopologues of toluene in a Ne matrix at 3 K and of liquid toluene at room temperature. The calculations use the vibrational self-consistent field method and the B3LYP potential surface. In general, good agreement is found between the calculations and experiments. However, the spectrum of toluene in a Ne matrix is more complicated than that predicted theoretically. This distinction is discussed in terms of matrix-site and resonance effects. Interestingly, the strongest peak in the CH stretching spectrum has similar widths in the liquid phase and in a Ne matrix, despite the very different temperatures. Implications of this observation to the broadening mechanism are discussed. Finally, our results show that the B3LYP potential offers a good description of the anharmonic CH stretching band in toluene, but a proper description of matrix-site and resonance effects remains a challenge.
Cohen, A. ; Gerber, R. Benny. A Noble-Gas Hydride In A Nitrogen Medium: Structure, Spectroscopy, And Intermolecular Vibrations Of Hxebr@(N-2)(22). JOURNAL OF PHYSICAL CHEMISTRY A 2016, 120, 3372-3379.Abstract
Noble-gas hydrides have been extensively studied in noble gas matrices. However, little is known on their stability and properties in molecular hosts. Here, HXeBr in the N-2 environment is modeled at the B3LYP-D level of theory in a complete single shell of 22 N-2 molecules. The system is compared to similar models of HXeBr in CO2 and Xe clusters. The optimized structure of (HXeBr)@(N-2)(22) is of low symmetry and is highly anisotropic. None of the N-2 molecules are freely rotating, and the host molecules are not symmetrically positioned with respect to the HXeBr axis. The axes of the N-2 molecules are nonuniformly distributed. The computed anharmonic H-Xe stretching frequency of HXeBr in the N-2 cluster is in good accord with the experimental value. The soft mode frequencies of the cluster including both intermolecular vibrations and librations, have a broad distribution that ranges from 8.7 to 107 cm(-1). It is expected that these findings and specifically, the single-shell model, may shed light also on the local structure and vibrations of other impurities in a molecular media.