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Modeling intramolecular energy transfer in lanthanide chelates: A critical review and recent advances. INCLUDING ACTINIDES 2019. [DOI: 10.1016/bs.hpcre.2019.08.001] [Citation(s) in RCA: 27] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
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Ando S. Efficient Hybrid Functional and Basis Set Functions for DFT Calculation of Refractive Indices and Abbe Numbers of Organic Compounds. CHEM LETT 2018. [DOI: 10.1246/cl.180732] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
- Shinji Ando
- Department of Chemical Science and Engineering, Tokyo Institute of Technology, 2-12-1-E4-5 Ookayama, Meguro-ku, Tokyo 152-8552, Japan
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Li M, Zhuang B, Lu Y, Wang ZG, An L. Accurate Determination of Ion Polarizabilities in Aqueous Solutions. J Phys Chem B 2017; 121:6416-6424. [PMID: 28594180 DOI: 10.1021/acs.jpcb.7b04111] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
We present a novel method for obtaining salt polarizabilities in aqueous solutions based on our recent theory for the refractive index of salt solutions, which predicts a linear relationship between the refractive index and the salt concentration at low concentrations, with a slope determined by the intrinsic values of the salt polarizability and the density of the solution. Here we apply this theory to determine the polarizabilities of 32 strong electrolyte salts in aqueous solutions from refractive index and density measurements. Setting Li+ as the standard ion, we then determine the polarizabilities of seven cations (Na+, K+, Rb+, Cs+, Ca2+, Ba2+, and Sr2+) and seven anions (F-, Cl-, Br-, I-, ClO4-, NO3-, and SO42-), which can be used as important reference data. We investigate the effect of temperature on salt polarizabilities, which decreases slightly with increasing temperature. The ion polarizability is found to be proportional to the cube of bare ionic radius (rbare3) for univalent ions, but the relationship does not hold for multivalent ions. Contrary to findings of Krishnamurti, we find no significant linear relationship between ion polarizability and the square of the atomic number (N2) for smaller ions.
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Affiliation(s)
- Minglun Li
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences , Changchun 130022, People's Republic of China.,University of Chinese Academy of Sciences , Beijing 100049, People's Republic of China
| | - Bilin Zhuang
- Division of Chemistry and Chemical Engineering, California Institute of Technology , Pasadena, California 91125, United States
| | - Yuyuan Lu
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences , Changchun 130022, People's Republic of China
| | - Zhen-Gang Wang
- Division of Chemistry and Chemical Engineering, California Institute of Technology , Pasadena, California 91125, United States
| | - Lijia An
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences , Changchun 130022, People's Republic of China
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Abstract
Computer-aided drug discovery/design methods have played a major role in the development of therapeutically important small molecules for over three decades. These methods are broadly classified as either structure-based or ligand-based methods. Structure-based methods are in principle analogous to high-throughput screening in that both target and ligand structure information is imperative. Structure-based approaches include ligand docking, pharmacophore, and ligand design methods. The article discusses theory behind the most important methods and recent successful applications. Ligand-based methods use only ligand information for predicting activity depending on its similarity/dissimilarity to previously known active ligands. We review widely used ligand-based methods such as ligand-based pharmacophores, molecular descriptors, and quantitative structure-activity relationships. In addition, important tools such as target/ligand data bases, homology modeling, ligand fingerprint methods, etc., necessary for successful implementation of various computer-aided drug discovery/design methods in a drug discovery campaign are discussed. Finally, computational methods for toxicity prediction and optimization for favorable physiologic properties are discussed with successful examples from literature.
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Affiliation(s)
- Gregory Sliwoski
- Jr., Center for Structural Biology, 465 21st Ave South, BIOSCI/MRBIII, Room 5144A, Nashville, TN 37232-8725.
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Bonaccorsi R, Ghio C, Scrocco E, Tomasi J. The Effect of Intramolecular Interactions on the Transferability Properties of Localized Descriptions of Chemical Groups. Isr J Chem 2013. [DOI: 10.1002/ijch.198000011] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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Sigolaev YF, Semenov SG, Belyakov AV. Quantum-chemical study of silacyclohexanes C5H10SiHCN, C5H10SiH(t-Bu), C5H10Si(t-Bu)CN, and C5H10SiHF. RUSS J GEN CHEM+ 2013. [DOI: 10.1134/s1070363213050083] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Sabirov D, Tukhbatullina A, Bulgakov R. Dependence of static polarizabilities of C60Xn fullerene cycloadducts on the number of added groups X=CH2 and NH (n=1–30). COMPUT THEOR CHEM 2012. [DOI: 10.1016/j.comptc.2012.05.041] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Prezhdo V, Kowalski P, Kowalska T, Zubkova V, Olan K, Prezhdo O. Molecular polarizability anisotropy of some five-membered cyclic imides. J Mol Struct 2011. [DOI: 10.1016/j.molstruc.2011.04.016] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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STONE ANTHONYJ, HÄTTIG CHRISTOF, JANSEN GEORG, ÀNGYÀ JÀNOSG. Transferability of topologically partitioned polarizabilities: the case of n-alkanes. Mol Phys 2010. [DOI: 10.1080/002689796173930] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/16/2022]
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Krishtal A, Senet P, Van Alsenoy C. Local softness, softness dipole, and polarizabilities of functional groups: Application to the side chains of the 20 amino acids. J Chem Phys 2009; 131:044312. [DOI: 10.1063/1.3185349] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Huang HH, Tan SF, Tjia TH. The electric dipole moments of some methyl substituted pyrones and pyranopyrandiones. J Heterocycl Chem 2009. [DOI: 10.1002/jhet.5570130339] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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Lee SK, Polyakova Y, Row KH. Evaluation of Predictive Retention Factors for Phenolic Compounds with QSPR Equations. J LIQ CHROMATOGR R T 2007. [DOI: 10.1081/jlc-120028253] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Affiliation(s)
- Seung Ki Lee
- a Department of Chemical Engineering, Center for Advanced Bioseparation Technology , Inha University , 253 Yonghyun‐Dong, Nam‐Ku , Incheon , 402‐751 , South Korea
| | - Yulia Polyakova
- a Department of Chemical Engineering, Center for Advanced Bioseparation Technology , Inha University , 253 Yonghyun‐Dong, Nam‐Ku , Incheon , 402‐751 , South Korea
| | - Kyung Ho Row
- a Department of Chemical Engineering, Center for Advanced Bioseparation Technology , Inha University , 253 Yonghyun‐Dong, Nam‐Ku , Incheon , 402‐751 , South Korea
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Whitten AE, Jayatilaka D, Spackman MA. Effective molecular polarizabilities and crystal refractive indices estimated from x-ray diffraction data. J Chem Phys 2007; 125:174505. [PMID: 17100452 DOI: 10.1063/1.2364897] [Citation(s) in RCA: 40] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Although it was proposed some time ago that (hyper)polarizabilities might be estimated from the results of x-ray charge density refinements, early results were unconvincing. In this work we show that the one particle density obtained from the usual multipole refinement model does not contain sufficient information to determine these response properties and instead pursue the "constrained wave function" approach of fitting to x-ray structure factors. Simplified sum-over-states expressions are derived for determining the dipole polarizability from these wave functions, and these clearly show that the earlier work ignored important two-electron expectation values for the dipole polarizability, and two- and three-electron terms for Beta, etc. Correction factors for the simplified sum-over-states polarizability tensors from the constrained wave function are obtained by calibration against coupled Hartree-Fock ab initio results to yield in-crystal effective polarizability tensors. Results obtained for benzene, urea, and 2-methyl-4-nitroaniline demonstrate that the effective molecular polarizabilities clearly include the effects of intermolecular interactions and electron correlation, especially for urea where the effects on the polarizability are known to be quite large. We also carefully consider the way in which the linear bulk susceptibility, chi((1)), and refractive indices are determined from the x-ray fitted polarizabilities, employing three models based on a rigorous treatment of the local field. Incorrect results are obtained for the sort of molecules that are of interest in nonlinear optical applications if the molecules are approximated by single point dipoles. In contrast, the use of Lorentz-factor tensors averaged over several sites yields excellent results, with refractive indices obtained using this model in remarkably good agreement with optical measurements extrapolated to zero frequency.
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Affiliation(s)
- Andrew E Whitten
- Chemistry, University of New England, Armidale, New South Wales 2351, Australia
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Politzer P, Murray JS. Chapter 8 The average local ionization energy: concepts and applications. THEORETICAL AND COMPUTATIONAL CHEMISTRY 2007. [DOI: 10.1016/s1380-7323(07)80009-4] [Citation(s) in RCA: 31] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
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Nath A, Mandal P, Paul S, Chaudhury B. Determination of Molecular Properties of Some Polar Mesogenic Compounds. ACTA ACUST UNITED AC 2006. [DOI: 10.1080/10587259608042232] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Affiliation(s)
- A. Nath
- a Department of Physics , North Bengal University , Siliguri , 734430 , India
| | - P. Mandal
- a Department of Physics , North Bengal University , Siliguri , 734430 , India
| | - S. Paul
- a Department of Physics , North Bengal University , Siliguri , 734430 , India
| | - B. Chaudhury
- b Department of Physics , Regional Engg. College , Silchar , 788010 , India
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18
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Mason SF, Peacock RD, Stewart B. Ligand-polarization contributions to the intensity of hypersensitive trivalent lanthanide transitions. Mol Phys 2006. [DOI: 10.1080/00268977500103321] [Citation(s) in RCA: 182] [Impact Index Per Article: 10.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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Barron L, Clark B. The bond polarizability theory of Raman optical activity calculations on (R) - (+) bromochlorofluoromethane. Mol Phys 2006. [DOI: 10.1080/00268978200101621] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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Wolff JJ, Wortmann R. Organic Materials for Second-Order Non-Linear Optics. ADVANCES IN PHYSICAL ORGANIC CHEMISTRY 1999. [DOI: 10.1016/s0065-3160(08)60007-6] [Citation(s) in RCA: 79] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
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Buckingham AD. MOLECULES IN OPTICAL, ELECTRIC, AND MAGNETIC FIELDS: A Personal Perspective. Annu Rev Phys Chem 1998; 49:xiii-xxxv. [PMID: 15012437 DOI: 10.1146/annurev.physchem.49.1.0] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
[Figure: see text] ▪ Abstract Physical chemistry and theoretical chemistry have advanced over the past 50 years from being largely qualitative to having a mature status based firmly on the principles of quantum and statistical mechanics. My interest in the chemical elements and their compounds has prompted me to learn more about the nature of matter through the measurement and interpretation of optical, electric, and magnetic properties of molecules. In addition to holding intrinsic interest, such properties tell us about charge and current distributions and form the basis of electro-optics, magneto-optics, and nonlinear optics. They also help us understand the nature and strength of long-range intermolecular forces, the hydrogen bond, and molecular biology—topics that are apparently forever young.
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Affiliation(s)
- A D Buckingham
- Department of Chemistry, University of Cambridge, Cambridge CB2 1EW, United Kingdom
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Langlet J, Caillet J, Allavena M. Molecular mechanics investigation of weak complexes: the case of CO:H2O. J Mol Struct 1998. [DOI: 10.1016/s0022-2860(98)00414-1] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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Yong K, Lam Y, Koh L, Huang H, Lee S. Rotational isomerism and crystal structure of 1,1′-dicyano-1,1′-bicyclooctyl. J Mol Struct 1998. [DOI: 10.1016/s0022-2860(97)00305-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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27
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Rotational isomerism in 1,2-diaminoethane, 1,2-bis(dimethylamino)ethane and 1,2-bis(diethylamino)ethane. J Mol Struct 1997. [DOI: 10.1016/s0022-2860(97)00003-3] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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28
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Haase D, Krumrey C. Estimation of fundamental frequencies of perhalogenated ethylenes in terms of molecular fragment contributions. J Chem Phys 1996. [DOI: 10.1063/1.471364] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Chance RR, Baniukiewicz SP, Mintz D, Strate GV, Hadjichristidis N. Characterization of Low-Molecular-Weight Polymers: Failure of Universal Calibration in Size Exclusion Chromatography. INTERNATIONAL JOURNAL OF POLYMER ANALYSIS AND CHARACTERIZATION 1995. [DOI: 10.1080/10236669508009704] [Citation(s) in RCA: 41] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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Conformational investigation of N-aralkyl-bispyridinium dications by the Cotton-Mouton effect method. J Mol Struct 1994. [DOI: 10.1016/0022-2860(93)07896-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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Davies M, Pierens R, Aroney M. Metal—ligand bonding in LM(CO)5 complexes (L = NMe3, PMe3, PCl3, PBr3 or AsMe3; M = Cr, Mo or W) from dielectric, electro-optic and spectroscopic evidence. J Organomet Chem 1993. [DOI: 10.1016/0022-328x(93)80466-o] [Citation(s) in RCA: 27] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
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Complexation of lithium and sodium cations with β-phosphorylate ethers, modelling terminal groups of organophosphorus podands. An experimental and theoretical study. J Mol Struct 1992. [DOI: 10.1016/0022-2860(92)80136-6] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Bader R, Keith T, Gough K, Laidig K. Properties of atoms in molecules: additivity and transferability of group polarizabilities. Mol Phys 1992. [DOI: 10.1080/00268979200100901] [Citation(s) in RCA: 103] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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Cluster expansion of molecular tensor properties: electric dipole moments of methane derivatives. Chem Phys 1992. [DOI: 10.1016/0301-0104(92)80156-p] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Su T, Viggiano AA, Paulson JF. The effect of the dipole‐induced dipole potential on ion–polar molecule collision rate constants. J Chem Phys 1992. [DOI: 10.1063/1.462695] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Aroney M, Clarkson R, Hambley T, Pierens R. A study of polarities, polarisabilities and infrared spectra of LM(CO)5 complexes (M Cr, Mo or W; L = trimethylamine, quinuclidine, pyridine, p-methyl- or p-t-butylpyridine) and of the X-ray crystal structure of quinuclidine-Cr(CO)5: Evidence for π-acceptor behaviour of coordinated pyridine. J Organomet Chem 1992. [DOI: 10.1016/0022-328x(92)83066-q] [Citation(s) in RCA: 19] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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Liu J, Su T. Trajectory calculations of ion–molecule momentum transfer rate constants. J Chem Phys 1991. [DOI: 10.1063/1.461789] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Rubenstein LA, Osmana R. The interaction between 5-hydroxytryptamine and tryptophan: a serotonin receptor model. ACTA ACUST UNITED AC 1991. [DOI: 10.1016/0166-1280(91)85109-k] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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Bader RF, Laidig KE. The prediction and calculation of properties of atoms in molecules. ACTA ACUST UNITED AC 1991. [DOI: 10.1016/0166-1280(91)89007-n] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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Laidig KE, Bader RFW. Properties of atoms in molecules: Atomic polarizabilities. J Chem Phys 1990. [DOI: 10.1063/1.459444] [Citation(s) in RCA: 130] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Aroney M, Clarkson R, Klepetko R, Masters A, Pierens R. Dielectric, electro-optic and spectroscopic properties of (η6-arene)M(CO)3 complexes (M = Cr, Mo or W): a study of metal—arene interactions. J Organomet Chem 1990. [DOI: 10.1016/0022-328x(90)85168-x] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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47
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Lam Y, Tan B, Huang H. Rotational isomerism in 2-methyl-1,2-dinitropropane. J Mol Struct 1990. [DOI: 10.1016/0022-2860(90)80395-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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Static and Dynamic Stereochemistry of Alkyl and Analogous Groups. ADVANCES IN PHYSICAL ORGANIC CHEMISTRY 1989. [DOI: 10.1016/s0065-3160(08)60018-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register]
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Farinato R. Elongational flow-induced birefringence of polyacrylamide and poly(acrylamide-co-sodium acrylate). POLYMER 1988. [DOI: 10.1016/0032-3861(88)90110-3] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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