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Pausch A. Consistent Analytical Second Derivatives of the Kohn-Sham DFT Energy in the Framework of the Conductor-Like Screening Model through Gaussian Charge Distributions. J Chem Theory Comput 2024; 20:3169-3183. [PMID: 38557008 DOI: 10.1021/acs.jctc.4c00052] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/04/2024]
Abstract
The use of implicit solvation models such as the conductor-like screening model (COSMO) in quantum chemical calculations is very common, as both a rough estimate of solvation effects as well as a general tool for stabilizing ionic molecular structures. In order to generate a smooth potential energy surface as well as consistent gradients, it is necessary to apply the Gaussian charge model (GCM) for the COSMO charges. This work introduces an efficient implementation for consistent analytical second derivatives of the electronic energy with COSMO-GCM in the framework of the Kohn-Sham density functional theory. This is used to investigate the infrared spectroscopy of amino acids in aqueous solution, where the impact of pH on the molecular structure and vibrational spectra is examined. Furthermore, the structure and stability of selected all-metal aromatic cluster ions are assessed.
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Affiliation(s)
- Ansgar Pausch
- Institute of Physical Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 2, 76131 Karlsruhe, Germany
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2
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Varandas AJC. From six to eight Π-electron bare rings of group-XIV elements and beyond: can planarity be deciphered from the "quasi-molecules" they embed? Phys Chem Chem Phys 2022; 24:8488-8507. [PMID: 35343978 DOI: 10.1039/d1cp04130d] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Ab initio molecular orbital theory is used to study the structures of six and eight π-electron bare rings of group-XIV elements, and even larger [n]annulenes up to C18H18, including some of their mono-, di-, tri-, and tetra-anions. While some of the above rings are planar, others are nonplanar. A much spotlighted case is cyclo-octatetraene (C8H8), which is predicted to be nonplanar together with its heavier group-XIV analogues Si8H8 and Ge8H8, with the solely planar members of its family having the stoichiometric formulas C4Si4H8 and C4Ge4H8. A similar situation arises with the six π-electron bare rings, where benzene and substituted ones up to C3Si3H6 or so are planar, while others are not. However, the explanations encountered in the literature find support in ab initio calculations for such species, often rationalized from distinct calculated features. Using second-order Møller-Plesset perturbation theory and, when affordable (particularly tetratomics, which may allow even higher levels), the coupled-cluster method including single, double, and perturbative triple excitations, a common rationale is suggested based on a novel concept of quasi-molecules or the (3+4)-atom partition scheme. Any criticism of tautology is therefore avoided. The same analysis has also been successfully applied to even larger [n]annulenes, to their mixed family members involving silicon and germanium atoms, and to the C18 carbon ring. Furthermore, it has been extended to annulene anions to check the criteria of the popular Hückel rule for planarity and aromaticity. Exploratory work on cycloarenes is also reported. Besides a partial study of the involved potential energy surfaces, equilibrium geometries and harmonic vibrational frequencies have been calculated anew, for both the parent and the actual prototypes of the quasi-molecules.
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Affiliation(s)
- A J C Varandas
- School of Physics and Physical Engineering, Qufu Normal University, 273165 Qufu, China.,Department of Physics, Universidade Federal do Esp rito Santo, 29075-910 Vitória, Brazil.,Department of Chemistry, and Chemistry Centre, University of Coimbra, 3004-535 Coimbra, Portugal.
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Islas R, Oyarzún DP, Cantero-López P. Analysis of the aromaticity in extended systems formed from isoelectronic Al42− and C42+ aromatic clusters. Struct Chem 2018. [DOI: 10.1007/s11224-018-1120-6] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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4
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Boldyrev AI, Wang LS. Beyond organic chemistry: aromaticity in atomic clusters. Phys Chem Chem Phys 2016; 18:11589-605. [DOI: 10.1039/c5cp07465g] [Citation(s) in RCA: 96] [Impact Index Per Article: 10.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
We describe joint experimental and theoretical studies carried out collaboratively in the authors' labs for understanding the structures and chemical bonding of novel atomic clusters, which exhibit aromaticity.
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Hatami M, Bayat M, Keypour H, Salehzadeh S. Ab initio and DFT studies on the structures, binding energies and nature of bonds in X2Y3 metal clusters (X+ = Li+, Na+ and K+; ${\rm Y}_{3}^{2-} = {\rm Zn}_{3}^{2-}, {\rm Cd}_{3}^{2-}$ and ${\rm Hg}_{3}^{2-}$). JOURNAL OF THEORETICAL & COMPUTATIONAL CHEMISTRY 2015. [DOI: 10.1142/s0219633615500431] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
Abstract
A comprehensive theoretical study on the structure and stability of linear and triangular isomers of anionic clusters of zinc, cadmium and mercury [Formula: see text] and their binding with one and two alkali metal cations ( X + = Li +, Na +, K +) has been investigated at the density functional (BP86 and B3LYP) and ab initio (MP2, MP4 and coupled cluster single and double (CCSD)) methods. The results showed that in all cases, the triangular geometry with D3h symmetry is more stable than linear one. The calculated values of interaction energies (IE) between [Formula: see text] anions and two X+ cations, Wiberg bond indices (WBI) and the electron densities at bond critical points (BCP), ρ(BCP), for Y–X bonds show that among all complexes investigated here at all levels of theory Zn 3 Li 2 and Hg 3 K 2 have the largest and the smallest values of IE, WBI and ρ(BCP), respectively. The natural charges of the atoms and WBI involved in the bonding as well as the global value of the charge transfer ΔQ from [Formula: see text] to X+ cation in X2Y3 clusters, evaluated through natural population analysis, confirmed that covalent contribution in Y–X bond formation increases from K + to Li +. Also the energy decomposition analyses (EDA) were used to detect the nature of interaction in the complexes. The results confirmed that the contribution of electrostatic interactions in present complexes is almost more than 70%.
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Affiliation(s)
- Masoud Hatami
- Hamedan University of Technology, Hamedan 65155, Iran
| | - Mehdi Bayat
- Department of Inorganic Chemistry, Faculty of Chemistry, Bu-Ali Sina University, Hamedan, Iran
| | - Hassan Keypour
- Department of Inorganic Chemistry, Faculty of Chemistry, Bu-Ali Sina University, Hamedan, Iran
| | - Sadegh Salehzadeh
- Department of Inorganic Chemistry, Faculty of Chemistry, Bu-Ali Sina University, Hamedan, Iran
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Sokolov AY, Magers DB, Wu JI, Allen WD, Schleyer PVR, Schaefer HF. Free Cyclooctatetraene Dianion: Planarity, Aromaticity, and Theoretical Challenges. J Chem Theory Comput 2013; 9:4436-43. [DOI: 10.1021/ct400642y] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Affiliation(s)
- Alexander Yu. Sokolov
- Center for Computational Quantum
Chemistry, The University of Georgia, Athens, Georgia 30602, United States
| | - D. Brandon Magers
- Center for Computational Quantum
Chemistry, The University of Georgia, Athens, Georgia 30602, United States
| | - Judy I. Wu
- Center for Computational Quantum
Chemistry, The University of Georgia, Athens, Georgia 30602, United States
| | - Wesley D. Allen
- Center for Computational Quantum
Chemistry, The University of Georgia, Athens, Georgia 30602, United States
| | - Paul v. R. Schleyer
- Center for Computational Quantum
Chemistry, The University of Georgia, Athens, Georgia 30602, United States
| | - Henry F. Schaefer
- Center for Computational Quantum
Chemistry, The University of Georgia, Athens, Georgia 30602, United States
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Islas R, Poater J, Matito E, Solà M. Molecular structures of M2N22− (M and N = B, Al, and Ga) clusters using the gradient embedded genetic algorithm. Phys Chem Chem Phys 2012; 14:14850-9. [DOI: 10.1039/c2cp42210g] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Badri Z, Foroutan-Nejad C, Rashidi-Ranjbar P. Method/basis set dependence of NICS values among metallic nano-clusters and hydrocarbons. Phys Chem Chem Phys 2012; 14:3471-81. [DOI: 10.1039/c2cp23205g] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
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Foroutan-Nejad C, Badri Z, Shahbazian S, Rashidi-Ranjbar P. The Laplacian of Electron Density versus NICSzz Scan: Measuring Magnetic Aromaticity among Molecules with Different Atom Types. J Phys Chem A 2011; 115:12708-14. [DOI: 10.1021/jp203681x] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
| | - Zahra Badri
- School of Chemistry, College of Science, University of Tehran, Tehran, Iran
| | - Shant Shahbazian
- Department of Chemistry, Faculty of Sciences, Shahid Beheshti University, G.C., Evin, Tehran, Iran
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Dominikowska J, Palusiak M. Cyclooctatetraene dianion-an artifact? J Comput Chem 2011; 32:1441-8. [DOI: 10.1002/jcc.21730] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2010] [Revised: 11/09/2010] [Accepted: 11/10/2010] [Indexed: 11/08/2022]
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12
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Fliegl H, Taubert S, Lehtonen O, Sundholm D. The gauge including magnetically induced current method. Phys Chem Chem Phys 2011; 13:20500-18. [DOI: 10.1039/c1cp21812c] [Citation(s) in RCA: 253] [Impact Index Per Article: 18.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
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Chakraborty A, Giri S, Duley S, Anoop A, Bultinck P, Chattaraj PK. Aromaticity in all-metal annular systems: the counter-ion effect. Phys Chem Chem Phys 2011; 13:14865-78. [DOI: 10.1039/c1cp21430f] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
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Poater J, Feixas F, Bickelhaupt FM, Solà M. All-metal aromatic clusters M42− (M = B, Al, and Ga). Are π-electrons distortive or not? Phys Chem Chem Phys 2011; 13:20673-81. [DOI: 10.1039/c1cp22759a] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
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Aromaticity and electronic delocalization in all-metal clusters with single, double, and triple aromatic character. Theor Chem Acc 2010. [DOI: 10.1007/s00214-010-0805-8] [Citation(s) in RCA: 53] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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Feixas F, Jiménez-Halla JOC, Matito E, Poater J, Solà M. A Test to Evaluate the Performance of Aromaticity Descriptors in All-Metal and Semimetal Clusters. An Appraisal of Electronic and Magnetic Indicators of Aromaticity. J Chem Theory Comput 2010. [DOI: 10.1021/ct100034p] [Citation(s) in RCA: 72] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Ferran Feixas
- Institut de Química Computacional and Departament de Química, Universitat de Girona, Campus de Montilivi, 17071 Girona, Catalonia, Spain and Institute of Physics, University of Szczecin, 70-451 Szczecin, Poland
| | - J. Oscar C. Jiménez-Halla
- Institut de Química Computacional and Departament de Química, Universitat de Girona, Campus de Montilivi, 17071 Girona, Catalonia, Spain and Institute of Physics, University of Szczecin, 70-451 Szczecin, Poland
| | - Eduard Matito
- Institut de Química Computacional and Departament de Química, Universitat de Girona, Campus de Montilivi, 17071 Girona, Catalonia, Spain and Institute of Physics, University of Szczecin, 70-451 Szczecin, Poland
| | - Jordi Poater
- Institut de Química Computacional and Departament de Química, Universitat de Girona, Campus de Montilivi, 17071 Girona, Catalonia, Spain and Institute of Physics, University of Szczecin, 70-451 Szczecin, Poland
| | - Miquel Solà
- Institut de Química Computacional and Departament de Química, Universitat de Girona, Campus de Montilivi, 17071 Girona, Catalonia, Spain and Institute of Physics, University of Szczecin, 70-451 Szczecin, Poland
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Diagnosis of the σ-, π- and (σ+π)-Aromaticity by the Shape of the NICSzz-Scan Curves and Symmetry-Based Selection Rules. Symmetry (Basel) 2010. [DOI: 10.3390/sym2010284] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023] Open
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JimÉnez-halla JOC, Matito E, Blancafort L, Robles J, Solà M. Tuning aromaticity in trigonal alkaline earth metal clusters and their alkali metal salts. J Comput Chem 2009; 30:2764-76. [DOI: 10.1002/jcc.21291] [Citation(s) in RCA: 43] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
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20
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Tonner R, Lein M, Wesendrup R, Schwerdtfeger P. A systematic density functional and wavefunction-based study on dicarboxyl dianions −O2C–R–CO2 − with R = C2, C2X2, C2X4, and C6X4 (X = H, F). Theor Chem Acc 2009. [DOI: 10.1007/s00214-009-0598-9] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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21
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Nguyen MT, Matus MH, Ngan VT, Grant DJ, Dixon DA. Thermochemistry and Electronic Structure of Small Boron and Boron Oxide Clusters and Their Anions. J Phys Chem A 2009; 113:4895-909. [DOI: 10.1021/jp811391v] [Citation(s) in RCA: 77] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Minh Tho Nguyen
- Department of Chemistry, The University of Alabama, Shelby Hall, Tuscaloosa, Alabama 35487-0336, Department of Chemistry, University of Leuven, B-3001 Leuven, Belgium, and Unidad de Servicios de Apoyo en Resolución Analítica, Universidad Veracruzana, A. P. 575, Xalapa, Ver., Mexico
| | - Myrna H. Matus
- Department of Chemistry, The University of Alabama, Shelby Hall, Tuscaloosa, Alabama 35487-0336, Department of Chemistry, University of Leuven, B-3001 Leuven, Belgium, and Unidad de Servicios de Apoyo en Resolución Analítica, Universidad Veracruzana, A. P. 575, Xalapa, Ver., Mexico
| | - Vu Thi Ngan
- Department of Chemistry, The University of Alabama, Shelby Hall, Tuscaloosa, Alabama 35487-0336, Department of Chemistry, University of Leuven, B-3001 Leuven, Belgium, and Unidad de Servicios de Apoyo en Resolución Analítica, Universidad Veracruzana, A. P. 575, Xalapa, Ver., Mexico
| | - Daniel J. Grant
- Department of Chemistry, The University of Alabama, Shelby Hall, Tuscaloosa, Alabama 35487-0336, Department of Chemistry, University of Leuven, B-3001 Leuven, Belgium, and Unidad de Servicios de Apoyo en Resolución Analítica, Universidad Veracruzana, A. P. 575, Xalapa, Ver., Mexico
| | - David A. Dixon
- Department of Chemistry, The University of Alabama, Shelby Hall, Tuscaloosa, Alabama 35487-0336, Department of Chemistry, University of Leuven, B-3001 Leuven, Belgium, and Unidad de Servicios de Apoyo en Resolución Analítica, Universidad Veracruzana, A. P. 575, Xalapa, Ver., Mexico
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Chattaraj PK, Giri S. Electrophilicity index within a conceptual DFT framework. ACTA ACUST UNITED AC 2009. [DOI: 10.1039/b802832j] [Citation(s) in RCA: 152] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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23
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Is nucleus-independent chemical shift scan a reliable aromaticity index for planar and neutral A2B2 clusters? ACTA ACUST UNITED AC 2009. [DOI: 10.1016/j.theochem.2008.09.019] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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24
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Giri S, Roy DR, Duley S, Chakraborty A, Parthasarathi R, Elango M, Vijayaraj R, Subramanian V, Islas R, Merino G, Chattaraj PK. Bonding, aromaticity, and structure of trigonal dianion metal clusters. J Comput Chem 2009; 31:1815-21. [PMID: 19921693 DOI: 10.1002/jcc.21452] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Affiliation(s)
- Santanab Giri
- Department of Chemistry and Center for Theoretical Studies, IIT Kharagpur, Kharagpur 721 302, India
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Affiliation(s)
- Dmitry Yu. Zubarev
- Department of Chemistry and Biochemistry, Utah State University, Logan, Utah 84322-0300
| | - Alexander I. Boldyrev
- Department of Chemistry and Biochemistry, Utah State University, Logan, Utah 84322-0300
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Lambrecht DS, Fleig T, Sommerfeld T. Reply to “Comment on ‘Instability of the Al42− ‘All-Metal Aromatic’ Ion and Its Implications’”. J Phys Chem A 2008. [DOI: 10.1021/jp803587v] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Daniel S. Lambrecht
- Institut für Theoretische und Computerchemie, Heinrich-Heine-Universität Düsseldorf, Universitätsstrasse 1, 40225 Düsseldorf, Germany
| | - Timo Fleig
- Institut für Theoretische und Computerchemie, Heinrich-Heine-Universität Düsseldorf, Universitätsstrasse 1, 40225 Düsseldorf, Germany
| | - Thomas Sommerfeld
- Department of Chemistry and Physics, Southeastern Louisiana University, SLU 10878, Hammond, Louisiana 70402
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Zubarev DY, Boldyrev AI. Comment on “Instability of the Al42− ‘All-Metal Aromaticʼ Ion and Its Implications”. J Phys Chem A 2008; 112:7984-5; discussion 7986. [DOI: 10.1021/jp802760n] [Citation(s) in RCA: 31] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Dmitry Yu. Zubarev
- Department of Chemistry and Biochemistry, Utah State University, Logan, Utah 84322
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