Convergence analysis of the scaled boundary finite element method for the Laplace equation

The scaled boundary finite element method (SBFEM) is a relatively recent boundary element method that allows the approximation of solutions to PDEs without the need of a fundamental solution. A theoretical framework for the convergence analysis of SBFEM is proposed here. This is achieved by defining a space of semi-discrete functions and constructing an interpolation operator onto this space. We prove error estimates for this interpolation operator and show that optimal convergence to the solution can be obtained in SBFEM. These theoretical results are backed by a numerical example.Comment: 15 pages, 3 figure

Entropy involved in fidelity of DNA replication

Information has an entropic character which can be analyzed within the Statistical Theory in molecular systems. R. Landauer and C.H. Bennett showed that a logical copy can be carried out in the limit of no dissipation if the computation is performed sufficiently slowly. Structural and recent single-molecule assays have provided dynamic details of polymerase machinery with insight into information processing. We introduce a rigorous characterization of Shannon Information in biomolecular systems and apply it to DNA replication in the limit of no dissipation. Specifically, we devise an equilibrium pathway in DNA replication to determine the entropy generated in copying the information from a DNA template in the absence of friction. Both the initial state, the free nucleotides randomly distributed in certain concentrations, and the final state, a polymerized strand, are mesoscopic equilibrium states for the nucleotide distribution. We use empirical stacking free energies to calculate the probabilities of incorporation of the nucleotides. The copied strand is, to first order of approximation, a state of independent and non-indentically distributed random variables for which the nucleotide that is incorporated by the polymerase at each step is dictated by the template strand, and to second order of approximation, a state of non-uniformly distributed random variables with nearest-neighbor interactions for which the recognition of secondary structure by the polymerase in the resultant double-stranded polymer determines the entropy of the replicated strand. Two incorporation mechanisms arise naturally and their biological meanings are explained. It is known that replication occurs far from equilibrium and therefore the Shannon entropy here derived represents an upper bound for replication to take place. Likewise, this entropy sets a universal lower bound for the copying fidelity in replication.Comment: 25 pages, 5 figure

Dynamics of doublon-holon pairs in Hubbard two-leg ladders

The dynamics of holon-doublon pairs is studied in Hubbard two-leg ladders using the time-dependent Density Matrix Renormalization Group method. We find that the geometry of the two-leg ladder, that is qualitatively different from a one-dimensional chain due to the presence of a spin-gap, strongly affects the propagation of a doublon-holon pair. Two distinct regimes are identified. For weak inter-leg coupling, the results are qualitatively similar to the case of the propagation previously reported in Hubbard chains, with only a renormalization of parameters. More interesting is the case of strong inter-leg coupling where substantial differences arise, particularly regarding the double occupancy and properties of the excitations such as the doublon speed. Our results suggest a connection between the presence of a spin gap and qualitative changes in the doublon speed, indicating a weak coupling between the doublon to magnetic excitations.Comment: 8 pages, 9 figures. Published versio

Sheffield University CLEF 2000 submission - bilingual track: German to English

We investigated dictionary based cross language information retrieval using lexical triangulation. Lexical triangulation combines the results of different transitive translations. Transitive translation uses a pivot language to translate between two languages when no direct translation resource is available. We took German queries and translated then via Spanish, or Dutch into English. We compared the results of retrieval experiments using these queries, with other versions created by combining the transitive translations or created by direct translation. Direct dictionary translation of a query introduces considerable ambiguity that damages retrieval, an average precision 79% below monolingual in this research. Transitive translation introduces more ambiguity, giving results worse than 88% below direct translation. We have shown that lexical triangulation between two transitive translations can eliminate much of the additional ambiguity introduced by transitive translation