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Stuart Carter

Publications and source records attributed to Stuart Carter.

At least 19 recordsLinked to original sources
PubMed2006

Potential energy surface and MULTIMODE vibrational analysis of C2H3+.

A full dimensional, ab initio-based semiglobal potential energy surface for C(2)H(3) (+) is reported. The ab initio electronic energies for this molecule are calculated using the spin-restricted, coupled cluster method restricted to single and double excitations with triples corrections [RCCSD(T)]. The RCCSD(T) method is used with the correlation-consistent polarized valence triple-zeta basis augmented with diffuse functions (aug-cc-pVTZ). The ab initio potential energy surface is represented by a many-body (cluster) expansion, each term of which uses functions that are fully invariant under permutations of like nuclei. The fitted potential energy surface is validated by comparing normal mode frequencies at the global minimum and secondary minimum with previous and new direct ab initio frequencies. The potential surface is used in vibrational analysis using the "single-reference" and "reaction-path" versions of the code MULTIMODE.

Journal Article↗
PubMed2006

Highly excited vibrational states of HCN around 30 000 cm-1.

This article describes the analysis and interpretation of rovibrational spectra involving highly excited vibrational states in the molecule of HCN. The spectra were obtained by means of the vibrationally mediated photodissociation technique. Analysis of the spectra revealed four bands with Sigma-Sigma structures that, once fitted, provided the energies and rotational constants of four new, highly excited vibrational states in the region of the potential energy surface near and above 30 000 cm(-1). All the states could be identified with the help of a state-of-the-art variational calculation. Together with the states already observed in previous works, eight highly excited states have so far been identified in this region.

Journal Article↗
PubMed2006

A reaction surface Hamiltonian study of malonaldehyde.

We report calculations using a reaction surface Hamiltonian for which the vibrations of a molecule are represented by 3N-8 normal coordinates, Q, and two large amplitude motions, s(1) and s(2). The exact form of the kinetic energy operator is derived in these coordinates. The potential surface is first represented as a quadratic in Q, the coefficients of which depend upon the values of s(1),s(2) and then extended to include up to Q(6) diagonal anharmonic terms. The vibrational energy levels are evaluated by solving the variational secular equations, using a basis of products of Hermite polynomials and appropriate functions of s(1),s(2). Our selected example is malonaldehyde (N=9) and we choose as surface parameters two OH distances of the migrating H in the internal hydrogen transfer. The reaction surface Hamiltonian is ideally suited to the study of the kind of tunneling dynamics present in malonaldehyde. Our results are in good agreement with previous calculations of the zero point tunneling splitting and in general agreement with observed data. Interpretation of our two-dimensional reaction surface states suggests that the OH stretching fundamental is incorrectly assigned in the infrared spectrum. This mode appears at a much lower frequency in our calculations due to substantial transition state character.

Journal Article↗
PubMed2006

Anharmonic vibrational levels of the two cyclic isomers of SiC3.

Using coupled-cluster approach full six-dimensional analytic potential energy surfaces for two cyclic SiC(3) isomers [C-C transannular bond (I) and Si-C transannular bond (II)] have been generated and used to calculate anharmonic vibrational wave functions. Several strong low-lying anharmonic resonances have been found. In both isomers already some of the fundamental transitions cannot be described within the harmonic approximation. Adiabatic electron affinities and ionization energies have been calculated as well. The Franck-Condon factors for the photodetachment processes c-SiC(3) (-)(I)-->c-SiC(3)(I) and c-SiC(3) (-)(II)-->c-SiC(3)(II) are reported.

Journal Article↗
PubMed2005

Quantum studies of the vibrations in H3O2- and D3O2-.

The vibrations of H3O2- and D3O2- are investigated using diffusion Monte Carlo (DMC) and vibrational configuration-interaction approaches, as implemented in the program MULTIMODE. These studies use the potential surface recently developed by Huang et al. [ J. Am. Chem. Soc. 126, 5042 (2004)]. The focus of this work is on the vibrational ground state and fundamentals which occur between 100 and 3700 cm(-1). In most cases, excellent agreement is obtained between the fundamental frequencies calculated by the two approaches. This serves to demonstrate the power of both methods for treating this very anharmonic system. Based on the results of the MULTIMODE and DMC treatments, the extent and nature of the couplings in H3O2- and D3O2- are investigated.

Journal Article↗
PubMed2005

Ab initio prediction of the infrared-absorption spectrum of the C2Cl radical.

The three lowest (1(2)A', 2(2)A', and 1(2)A") potential-energy surfaces of the C2Cl radical, correlating at linear geometries with 2Sigma+ and 2Pi states, have been studied ab initio using a large basis set and multireference configuration-interaction techniques. The electronic ground state is confirmed to be bent with a very low barrier to linearity, due to the strong nonadiabatic electronic interactions taking place in this system. The rovibronic energy levels of the 12C12C35Cl isotopomer and the absolute absorption intensities at a temperature of 5 K have been calculated, to an upper limit of 2000 cm(-1), using diabatic potential-energy and dipole moment surfaces and a recently developed variational method. The resulting vibronic states arise from a strong mixture of all the three electronic components and their assignments are intrinsically ambiguous.

Journal Article↗
PubMed2005

The vibrational predissociation spectra of the H5O2 +RGn(RG = Ar,Ne) clusters: correlation of the solvent perturbations in the free OH and shared proton transitions of the Zundel ion.

Predissociation spectra of the H(5)O(2) (+)RG(n)(RG = Ar,Ne) cluster ions are reported in energy regions corresponding to both the OH stretching (3350-3850 cm(-1)) and shared proton (850-1950 cm(-1)) vibrations. The two free OH stretching bands displayed by the Ne complex are quite close to the band origins identified earlier in bare H(5)O(2) (+) [L. I. Yeh, M. Okumura, J. D. Myers, J. M. Price, and Y. T. Lee, J. Chem. Phys. 91, 7319 (1989)], indicating that the symmetrical H(5)O(2) (+) "Zundel" ion remains largely intact in H(5)O(2) (+)Ne. The low-energy spectrum of the Ne complex is simpler than that observed previously for H(5)O(2) (+)Ar, and is dominated by two sharp transitions at 928 and 1047 cm(-1), with a weaker feature at 1763 cm(-1). The H(5)O(2) (+)Ar(n),n = 1-5 spectra generally exhibit complex band structures reflecting solvent-induced symmetry breaking of the Zundel core ion. The extent of solvent perturbation is evaluated with electronic structure calculations, which predict that the rare gas atoms should attach to the spectator OH groups of H(5)O(2) (+) rather than to the shared proton. In the asymmetric complexes, the shared proton resides closer to the more heavily solvated water molecule, leading to redshifts in the rare gas atom-solvated OH stretches and to blueshifts in the shared proton vibrations. The experimental spectra are compared with recent full-dimensional vibrational calculations (diffusion Monte Carlo and multimode/vibrational configuration interaction) on H(5)O(2) (+). These results are consistent with assignment of the strong low-energy bands in the H(5)O(2) (+)Ne spectrum to the vibration of the shared proton mostly along the O-O axis, with the 1763 cm(-1) band traced primarily to the out-of-phase, intramolecular bending vibrations of the two water molecules.

Journal Article↗
PubMed2005

Full-dimensional vibrational calculations for H5O2+ using an ab initio potential energy surface.

We report quantum diffusion Monte Carlo (DMC) and variational calculations in full dimensionality for selected vibrational states of H(5)O(2) (+) using a new ab initio potential energy surface [X. Huang, B. Braams, and J. M. Bowman, J. Chem. Phys. 122, 044308 (2005)]. The energy and properties of the zero-point state are focused on in the rigorous DMC calculations. OH-stretch fundamentals are also calculated using "fixed-node" DMC calculations and variationally using two versions of the code MULTIMODE. These results are compared with infrared multiphoton dissociation measurements of Yeh et al. [L. I. Yeh, M. Okumura, J. D. Myers, J. M. Price, and Y. T. Lee, J. Chem. Phys. 91, 7319 (1989)]. Some preliminary results for the energies of several modes of the shared hydrogen are also reported.

Journal Article↗
PubMed2005

Argon predissociation spectroscopy of the OH-.H2O and Cl-.H2O complexes in the 1000-1900 cm(-1) region: intramolecular bending transitions and the search for the shared-proton fundamental in the hydroxide monohydrate.

We present argon predissociation vibrational spectra of the OH(-).H(2)O and Cl(-).H(2)O complexes in the 1000-1900 cm(-1) energy range, far below the OH stretching region reported in previous studies. This extension allows us to explore the fundamental transitions of the intramolecular bending vibrations associated with the water molecule, as well as that of the shared proton inferred from previous assignments of overtones in the higher energy region. Although the water bending fundamental in the Cl(-).H(2)O spectrum is in very good agreement with expectations, the OH(-).H(2)O spectrum is quite different than anticipated, being dominated by a strong feature at 1090 cm(-1). New full-dimensionality calculations of the OH(-).H(2)O vibrational level structure using diffusion Monte Carlo and the VSCF/CI methods indicate this band arises from excitation of the shared proton.

Journal Article↗
PubMed2005

Vibrations in the B4 rhombic structure.

A double minimum six-dimensional potential energy surface (PES) is determined in symmetry coordinates for the most stable rhombic (D2h) B4 isomer in its 1Ag electronic ground state by fitting to energies calculated ab initio. The PES exhibits a barrier to the D4h square structure of 255 cm(-1). The vibrational levels (J=0) are calculated variationally using an approach which involves the Watson kinetic energy operator expressed in normal coordinates. The pattern of about 65 vibrational levels up to 1600 cm(-1) for all stable isotopomers is analyzed. Analogous to the inversion in ammonia-like molecules, the rhombus rearrangements lead to splittings of the vibrational levels. In B4 it is the B1g (D4h) mode which distorts the square molecule to its planar rhombic form. The anharmonic fundamental vibrational transitions of 11B4 are calculated to be (splittings in parentheses): G(0)=2352(22) cm(-1), nu1(A1g)=1136(24) cm(-1), nu2(B1g)=209(144) cm(-1), nu3(B2g)=1198(19) cm(-1), nu4(B2u)=271(24) cm(-1), and nu5(Eu)=1030(166) cm(-1) (D4h notation). Their variations in all stable isotopomers were investigated. Due to the presence of strong anharmonic resonances between the B1g in-plane distortion and the B2u out-of-plane bending modes, the higher overtones and combination levels are difficult to assign unequivocally.

Journal Article↗
PubMed2005

Matrix metalloproteinase expression is related to angiogenesis and histologic grade in spindle cell soft tissue neoplasms of the extremities.

We defined the immunocytochemical expression of matrix metalloproteinases (MMPs) and their tissue inhibitors (TIMPs) in benign soft tissue neoplasms, fibromatoses, and sarcomas, together with the activity of gelatinase MMPs and TIMPs measured by zymography and reverse zymography in a subset of cases. The most strongly expressed MMP in all tumors was MMP-1, with weaker expression of MMP-10, MMP-11, and MMP-14 in most tumors. Nuclear expression of MMP-1, MMP-8, and MMP-13 was an unusual feature. TIMP-2 was expressed in all tumors, with stronger expression in fibromatoses than in sarcomas. Fibromatoses and high-grade sarcomas showed greater MMP-1 expression than other groups, and endothelial MMP-2 expression was more extensive in sarcomas. Differences in MMP and TIMP expression might be linked to the biologic behavior of soft tissue neoplasms. The activation of endothelial MMP-2 linked to widespread MMP-14 expression provides a mechanism for sarcomas to modulate their matrix and facilitate angiogenesis.

Adolescent↗
PubMed2004

Calculation of converged rovibrational energies and partition function for methane using vibrational-rotational configuration interaction.

The rovibration partition function of CH4 was calculated in the temperature range of 100-1000 K using well-converged energy levels that were calculated by vibrational-rotational configuration interaction using the Watson Hamiltonian for total angular momenta J = 0-50 and the MULTIMODE computer program. The configuration state functions are products of ground-state occupied and virtual modals obtained using the vibrational self-consistent field method. The Gilbert and Jordan potential energy surface was used for the calculations. The resulting partition function was used to test the harmonic oscillator approximation and the separable-rotation approximation. The harmonic oscillator, rigid-rotator approximation is in error by a factor of 2.3 at 300 K, but we also propose a separable-rotation approximation that is accurate within 2% from 100 to 1000 K.

Journal Article↗
PubMed2004

Quantum calculations of vibrational energies of H3O2- on an ab initio potential.

We report a full-dimensional potential energy surface for H3O2-, based on fitting 66,965 ab initio electronic energies. A major feature of this potential is a barrier of roughly 200 cm-1 to internal rotation of the two hydroxyl groups about a line connecting the two oxygen atoms and the bridging hydrogen atom. The potential is used in calculations of vibrational energies, performed with the "Reaction Path" version of the code "MULTIMODE". The results are compared to recent infrared messenger experiments and are used to propose interpretations of the experimental results.

Journal Article↗
PubMed2004

Spectroscopy of highly excited vibrational states of HCN in its ground electronic state.

An experimental technique based on a scheme of vibrationally mediated photodissociation has been developed and applied to the spectroscopic study of highly excited vibrational states in HCN, with energies between 29,000 and 30,000 cm(-1). The technique consists of four sequential steps: in the first one, a high power laser is used to vibrationally excite the sample to an intermediate state, typically (0,0,4), the nu3 mode being approximately equivalent to the C-H stretching vibration. Then a second laser is used to search for transitions between this intermediate state and highly vibrationally excited states. When one of these transitions is found, HCN molecules are transferred to a highly excited vibrational state. Third, a ultraviolet laser photodissociates the highly excited molecules to produce H and CN radicals in its A 2Pi electronic state. Finally, a fourth laser (probe) detects the presence of the CN(A) photofragments by means of an A-->B-->X laser induced fluorescence scheme. The spectra obtained with this technique, consisting of several rotationally resolved vibrational bands, have been analyzed. The positions and rotational parameters of the states observed are presented and compared with the results of a state-of-the-art variational calculation.

Computer Simulation↗
PubMed2004

Passage from India: the first European Veterinary Immunology Workshop.

The European Veterinary Immunology Group (EVIG) was founded under the auspices of the European Federation of Immunologic Societies (EFIS) in 2001, and held its first meeting in autumn 2003 in Berlin. Here, we summarize the short history of this group, report on the workshop in Berlin and outline some future perspectives up to the next meeting scheduled for 2006 in Paris.

Allergy and Immunology↗
PubMed2003

Vibrational spectra of furan, pyrrole, and thiophene from a density functional theory anharmonic force field.

Quartic force fields for furan, pyrrole, and thiophene have been generated using density functional theory (DFT). These were used to evaluate vibrational levels by second-order perturbation theory (PT) and also by the variational method. The results for the fundamental frequencies are in very good agreement with observation. The accuracy of overtones and combination transitions is also good, for those cases where assignments can be made. Second-order PT combines speed and quality whereas the variational approach is inherently more reliable, but converges rather slowly, requiring significant computational effort.

Furans↗
PubMed2002

Gastrin-stimulated gastric epithelial cell invasion: the role and mechanism of increased matrix metalloproteinase 9 expression.

The gastric hormone gastrin regulates the organization of the gastric epithelium, but the cellular control mechanisms are yet unknown. Epithelial remodelling typically involves extracellular proteolysis mediated by the matrix metalloproteinases (MMPs). Since a gene-array analysis of the gastric cancer cell line AGS-G(R) suggested that gastrin increased MMP-9 expression, we examined the control of MMP-9 expression by gastrin. Gelatin zymography confirmed gastrin induction of MMP-9 in AGS-G(R) cells, but showed a small inhibition of MMP-2. Immunocytochemical studies showed that MMP-9 was localized to vesicles that appeared to traffic along the processes that were extended in response to gastrin. Gastrin stimulated the invasion of AGS-G(R) cells through artificial basement membrane, which was reduced by an inhibitor of MMP-2/-9. There was also an increase in MMP-9 in the stomach of patients with elevated plasma gastrin and multiple-endocrine neoplasia type 1 (MEN-1) syndrome, suggesting in vivo regulation of MMP-9 expression by gastrin. Finally, we showed that the expression of 1.9 kb of human MMP-9 gene promoter coupled with luciferase (MMP-9-luc) was increased 7.65+/-1.2-fold by gastrin, via a pathway which includes stimulation of protein kinase C, and activation of Raf and the mitogen-activated protein (MAP) kinase pathway. The tumour suppressor menin (which is mutated in MEN-1 syndrome) inhibited the expression of MMP-9-luc by gastrin. These results suggest that gastrin increases MMP-9 expression, which is associated with increased invasion, and this is a putative mechanism regulating remodelling of the gastric epithelium.

Animals↗