Biomedical subjects

Peng-Dong Fan

Publications and source records attributed to Peng-Dong Fan.

5 recordsLinked to original sources

PubMed2007

High-order electron-correlation methods with scalar relativistic and spin-orbit corrections.

An assortment of computer-generated, parallel-executable programs of ab initio electron-correlation methods has been fitted with the ability to use relativistic reference wave functions. This has been done on the basis of scalar relativistic and spin-orbit effective potentials and by allowing the computer-generated programs to handle complex-valued, spinless orbitals determined by these potentials. The electron-correlation methods that benefit from this extension are high-order coupled-cluster methods (up to quadruple excitation operators) for closed- and open-shell species, coupled-cluster methods for excited and ionized states (up to quadruples), second-order perturbation corrections to coupled-cluster methods (up to triples), high-order perturbation corrections to configuration-interaction singles, and active-space (multireference) coupled-cluster methods for the ground, excited, and ionized states (up to active-space quadruples). A subset of these methods is used jointly such that the dynamical correlation energies and scalar relativistic effects are computed by a lower-order electron-correlation method with more extensive basis sets and all-electron relativistic treatment, whereas the nondynamical correlation energies and spin-orbit effects are treated by a higher-order electron-correlation method with smaller basis sets and relativistic effective potentials. The authors demonstrate the utility and efficiency of this composite scheme in chemical simulation wherein the consideration of spin-orbit effects is essential: ionization energies of rare gases, spectroscopic constants of protonated rare gases, and photoelectron spectra of hydrogen halides.

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PubMed2006

Active-space coupled-cluster methods through connected quadruple excitations.

Coupled-cluster methods that include just a subset of all connected triple, quadruple, or both excitation amplitudes, according to the ansatz of and Adamowicz co-workers [Int. Rev. Phys. Chem. 12, 339 (1993); J. Chem. Phys. 99, 1875 (1993); 100, 5792 (1994)] and Piecuch et al. [J. Chem. Phys. 110, 6103 (1999)], have been implemented into parallel execution programs. They are applicable to closed- and open-shell species and they take advantage of real Abelian point-group symmetry. A symbol manipulation program has been invoked to automate the implementation. These methods have been applied to the singlet-triplet separations of five triatomic hydrides (CH2, NH2+, SiH2, PH2+, and AsH2+) with consideration of scalar relativistic effects. They have been shown to be remarkably effective with errors arising from the use of a very small subset of higher-order excitations being no more than a few tenths of 1 kcal/mol.

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PubMed2004

Combined coupled-cluster and many-body perturbation theories.

Various approximations combining coupled-cluster (CC) and many-body perturbation theories have been derived and implemented into the parallel execution programs that take into account the spin, spatial (real Abelian), and permutation symmetries and that are applicable to closed- and open-shell molecules. The implemented models range from the CCSD(T), CCSD[T], CCSD(2)(T), CCSD(2)(TQ), and CCSDT(2)(Q) methods to the completely renormalized (CR) CCSD(T) and CCSD[T] approaches, where CCSD (CCSDT) stands for the CC method with connected single and double (single, double, and triple) cluster operators, and subscripted or parenthesized 2, T, and Q indicate the perturbation order or the excitation ranks of the cluster operators included in the corrections. The derivation and computer implementation have been automated by the algebraic and symbolic manipulation program TENSOR CONTRACTION ENGINE (TCE). The TCE-synthesized subroutines generate the tensors with the highest excitation rank in a blockwise manner so that they need not be stored in their entirety, while enabling the efficient reuse of other precalculated intermediate tensors defined by prioritizing the memory optimization as well as operation minimization. Consequently, the overall storage requirements for the corrections due to connected triple and quadruple cluster operators scale as O(n(4)) and O(n(6)), respectively (n being a measure of the system size). For systems with modest multireference character of their wave functions, we found that the order of accuracy is CCSD<CR-CCSD(T) approximately CCSD(2)(T) approximately CCSD(T)<CCSDT approximately CCSD(2)(TQ)<CCSDT(2)(Q), whereas CR-CCSD(T) is more effective in cases of larger quasidegeneracy. The operation costs of the TCE-generated CCSD(2)(TQ) and CCSDT(2)(Q) codes scale as rather steep O(n(9)), while the TCE-generated CCSD(T), CCSD(2)(T), and CR-CCSD(T) codes are near operation minimum [a noniterative O(n(7))]. The perturbative correction part of the CCSD(T)/cc-pVDZ calculations for azulene exhibited a 45-fold speedup upon a 64-fold increase in the number of processors from 8 to 512.

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PubMed2003

Exactness of two-body cluster expansions in many-body quantum theory.

The Horn-Weinstein formula and the variational principle, combined with numerical results for a few many-electron systems, are used to provide support for a conjecture that the exact ground-state wave function for a Hamiltonian system containing up to two-body terms may be represented by an exponential cluster expansion employing a finite two-body operator.

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PubMed2002

Electron counts for face-bridged octahedral transition metal clusters.

Kohn-Sham orbital energy patterns were used to rationalize valence electron counts for stable face-capped octahedral clusters [M(6)E(8)L(6)] (E=S, Se, Te, Cl; L=CO, PMe(3), Cl(-)). When L is a pi acceptor such as CO or PMe(3), stable closed-shell clusters are found for 80, 84, and 98 electrons. For L=Cl(-) (i.e. a pi-electron donor), only a count of 84 electrons appears favorable, as is found in [Mo(6)Cl(14)](2-). These counting rules apply to fivefold coordination of M, which becomes unstable if the electron count exceeds 98, for example, for M=Ni. In this case structures with tetrahedrally coordinated M are energetically favored, and this leads to different cluster structures.

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