570 research outputs found
Steady and Stable: Numerical Investigations of Nonlinear Partial Differential Equations
Excerpt: Mathematics is a language which can describe patterns in everyday life as well as abstract concepts existing only in our minds. Patterns exist in data, functions, and sets constructed around a common theme, but the most tangible patterns are visual. Visual demonstrations can help undergraduate students connect to abstract concepts in advanced mathematical courses. The study of partial differential equations, in particular, benefits from numerical analysis and simulation
Tapping the nucleotide pool of the host: novel nucleotide carrier proteins of Protochlamydia amoebophila
Protochlamydia amoebophila UWE25 is related to the Chlamydiaceae comprising major pathogens of humans, but thrives as obligate intracellular symbiont in the protozoan host Acanthamoeba sp. The genome of P. amoebophila encodes five paralogous carrier proteins belonging to the nucleotide transporter (NTT) family. Here we report on three P. amoebophila NTT isoforms, PamNTT2, PamNTT3 and PamNTT5, which possess several conserved amino acid residues known to be critical for nucleotide transport. We demonstrated that these carrier proteins are able to transport nucleotides, although substrate specificities and mode of transport differ in an unexpected manner and are unique among known NTTs. PamNTT2 is a counter exchange transporter exhibiting submillimolar apparent affinities for all four RNA nucleotides, PamNTT3 catalyses an unidirectional proton-coupled transport confined to UTP, whereas PamNTT5 mediates a proton-energized GTP and ATP import. All NTT genes of P. amoebophila are transcribed during intracellular multiplication in acanthamoebae. The biochemical characterization of all five NTT proteins from P. amoebophila in this and previous studies uncovered that these metabolically impaired bacteria are intimately connected with their host cell’s metabolism in a surprisingly complex manner
Self-assembly of quantum dots: effect of neighbor islands on the wetting in coherent Stranski-Krastanov growth
The wetting of the homogeneously strained wetting layer by dislocation-free
three-dimensional islands belonging to an array has been studied. The array has
been simulated as a chain of islands in 1+1 dimensions. It is found that the
wetting depends on the density of the array, the size distribution and the
shape of the neighbor islands. Implications for the self-assembly of quantum
dots grown in the coherent Stranski-Krastanov mode are discussed.Comment: 4 pages, 6 figures, accepted version, minor change
Charmless Decays Based on the six-quark Effective Hamiltonian with Strong Phase Effects II
We provide a systematic study of charmless decays (
and denote pseudoscalar and vector mesons, respectively) based on an
approximate six-quark operator effective Hamiltonian from QCD. The calculation
of the relevant hard-scattering kernels is carried out, the resulting
transition form factors are consistent with the results of QCD sum rule
calculations. By taking into account important classes of power corrections
involving "chirally-enhanced" terms and the vertex corrections as well as weak
annihilation contributions with non-trivial strong phase, we present
predictions for the branching ratios and CP asymmetries of decays into
PP, PV and VV final states, and also for the corresponding polarization
observables in VV final states. It is found that the weak annihilation
contributions with non-trivial strong phase have remarkable effects on the
observables in the color-suppressed and penguin-dominated decay modes. In
addition, we discuss the SU(3) flavor symmetry and show that the symmetry
relations are generally respected
Gravitational excitons from extra dimensions
Inhomogeneous multidimensional cosmological models with a higher dimensional
space-time manifold are investigated under dimensional reduction. In the
Einstein conformal frame, small excitations of the scale factors of the
internal spaces near minima of an effective potential have a form of massive
scalar fields in the external space-time. Parameters of models which ensure
minima of the effective potentials are obtained for particular cases and masses
of gravitational excitons are estimated.Comment: Revised version --- 12 references added, Introduction enlarged, 20
pages, LaTeX, to appear in Phys.Rev.D56 (15.11.97
Sign patterns for chemical reaction networks
Most differential equations found in chemical reaction networks (CRNs) have
the form , where lies in the nonnegative orthant, where
is a real matrix (the stoichiometric matrix) and is a column vector
consisting of real-valued functions having a special relationship to . Our
main interest will be in the Jacobian matrix, , of , in particular
in whether or not each entry has the same sign for all in the
orthant, i.e., the Jacobian respects a sign pattern. In other words species
always acts on species in an inhibitory way or its action is always
excitatory.
In Helton, Klep, Gomez we gave necessary and sufficient conditions on the
species-reaction graph naturally associated to which guarantee that the
Jacobian of the associated CRN has a sign pattern. In this paper, given we
give a construction which adds certain rows and columns to , thereby
producing a stoichiometric matrix corresponding to a new CRN with
some added species and reactions. The Jacobian for this CRN based on
has a sign pattern. The equilibria for the and the based CRN are
in exact one to one correspondence with each equilibrium for the original
CRN gotten from an equilibrium for the new CRN by removing its added
species. In our construction of a new CRN we are allowed to choose rate
constants for the added reactions and if we choose them large enough the
equilibrium is locally asymptotically stable if and only if the
equilibrium is locally asymptotically stable. Further properties of the
construction are shown, such as those pertaining to conserved quantities and to
how the deficiencies of the two CRNs compare.Comment: 23 page
Combinatorial Preconditioners and Multilevel Solvers for Problems in Computer Vision and Image Processing
Transverse Beam Spin Asymmetries in Forward-Angle Elastic Electron-Proton Scattering
We have measured the beam-normal single-spin asymmetry in elastic scattering
of transversely-polarized 3 GeV electrons from unpolarized protons at Q^2 =
0.15, 0.25 (GeV/c)^2. The results are inconsistent with calculations solely
using the elastic nucleon intermediate state, and generally agree with
calculations with significant inelastic hadronic intermediate state
contributions. A_n provides a direct probe of the imaginary component of the
2-gamma exchange amplitude, the complete description of which is important in
the interpretation of data from precision electron-scattering experiments.Comment: 5 pages, 3 figures, submitted to Physical Review Letters; shortened
to meet PRL length limit, clarified some text after referee's comment
Strange Quark Contributions to Parity-Violating Asymmetries in the Forward G0 Electron-Proton Scattering Experiment
We have measured parity-violating asymmetries in elastic electron-proton
scattering over the range of momentum transfers 0.12 < Q^2 < 1.0 GeV^2. These
asymmetries, arising from interference of the electromagnetic and neutral weak
interactions, are sensitive to strange quark contributions to the currents of
the proton. The measurements were made at JLab using a toroidal spectrometer to
detect the recoiling protons from a liquid hydrogen target. The results
indicate non-zero, Q^2 dependent, strange quark contributions and provide new
information beyond that obtained in previous experiments.Comment: 5 pages, 2 figure
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