Finite-volume two-pion energies and scattering in the quenched approximation

We investigate how L\"uscher's relation between the finite-volume energy of two pions at rest and pion scattering lengths has to be modified in quenched QCD. We find that this relation changes drastically, and in particular, that ``enhanced finite-volume corrections" of order $L^0=1$ and $L^{-2}$ occur at one loop ($L$ is the linear size of the box), due to the special properties of the $\eta'$ in the quenched approximation. We define quenched pion scattering lengths, and show that they are linearly divergent in the chiral limit. We estimate the size of these various effects in some numerical examples, and find that they can be substantial.Comment: 22 pages, uuencoded, compressed postscript fil

Heavy-light and light-light weak matrix elements on the lattice

I review recent developments in lattice weak matrix element calculations. I focus on on $f_B$ (both with propagating quarks and in the static limit for the $b$ quark), semi-leptonic form factors for $D$ meson decay, form factors for $B \to K^* \gamma$, and $B_K$. [Review presented at Lattice '93]Comment: 16 pages. (latex; 7 postscript figures included; 7 other figures are reproduced from work by others and are not available here. Some hardcopies of the talk will be available; send e-mail to [email protected].

Gene rearrangement analysis and ancestral order inference from chloroplast genomes with inverted repeat

Background Genome evolution is shaped not only by nucleotide substitutions, but also by structural changes including gene and genome duplications, insertions, deletions and gene order rearrangements. The most popular methods for reconstructing phylogeny from genome rearrangements include GRAPPA and MGR. However these methods are limited to cases where equal gene content or few deletions can be assumed. Since conserved duplicated regions are present in many chloroplast genomes, the inference of inverted repeats is needed in chloroplast phylogeny analysis and ancestral genome reconstruction. Results We extend GRAPPA and develop a new method GRAPPA-IR to handle chloroplast genomes. A test of GRAPPA-IR using divergent chloroplast genomes from land plants and green algae recovers the phylogeny congruent with prior studies, while analysis that do not consider IR structure fail to obtain the accepted topology. Our extensive simulation study also confirms that GRAPPA has better accuracy then the existing methods. Conclusions Tests on a biological and simulated dataset show GRAPPA-IR can accurately recover the genome phylogeny as well as ancestral gene orders. Close analysis of the ancestral genome structure suggests that genome rearrangement in chloroplasts is probably limited by inverted repeats with a conserved core region. In addition, the boundaries of inverted repeats are hot spots for gene duplications or deletions. The new GRAPPA-IR is available from http://phylo.cse.sc.ed

Granulocyte Macrophage Colony-Stimulating Factor: A New Putative Therapeutic Target in Multiple Sclerosis

Experimental autoimmune encephalomyelitis (EAE), a model for multiple sclerosis, can be induced by immunization with a number of myelin antigens. In particular, myelin oligodendrocyte glycoprotein, a central nervous system (CNS)-specific antigen expressed on the myelin surface, is able to induce a paralytic MS-like disease with extensive CNS inflammation and demyelination in several strains of animals. Although not well understood, the egress of immune cells into the CNS in EAE is governed by a complex interplay between pro and antiinflammatory cytokines and chemokines. The hematopoietic growth factor, granulocyte macrophage colony-stimulating factor (GM-CSF), is considered to play a central role in maintaining chronic inflammation. The present study was designed to investigate the previously unexplored role of GM-CSF in autoimmune-mediated demyelination. GM-CSF−/− mice are resistant to EAE, display decreased antigen-specific proliferation of splenocytes, and fail to sustain immune cell infiltrates in the CNS, thus revealing key activities for GM-CSF in the development of inflammatory demyelinating lesions and control of migration and/or proliferation of leukocytes within the CNS. These results hold implications for the pathogenesis of inflammatory and demyelinating diseases and may provide the basis for more effective therapies for inflammatory diseases, and more specifically for multiple sclerosis

Auxiliary fields and hadron dynamics

The relations existing between the auxiliary field (einbein field) formalism and the spinless Salpeter equation are studied in the case of two particles with the same mass, interacting via a confining potential. The problem of non-orthogonality for radial excited states in the auxiliary field formalism is discussed and found to be non-crucial. It is shown that the classical equations of motion of the rotating string model, derived from the QCD lagrangian, reduce exactly to the classical equations of motion of the phenomenological semirelativistic flux tube model, provided all auxiliary fields are eliminated correctly from the rotating string hamiltonian

The QCD spectrum with three quark flavors

We present results from a lattice hadron spectrum calculation using three flavors of dynamical quarks - two light and one strange, and quenched simulations for comparison. These simulations were done using a one-loop Symanzik improved gauge action and an improved Kogut-Susskind quark action. The lattice spacings, and hence also the physical volumes, were tuned to be the same in all the runs to better expose differences due to flavor number. Lattice spacings were tuned using the static quark potential, so as a byproduct we obtain updated results for the effect of sea quarks on the static quark potential. We find indications that the full QCD meson spectrum is in better agreement with experiment than the quenched spectrum. For the 0++ (a0) meson we see a coupling to two pseudoscalar mesons, or a meson decay on the lattice.Comment: 38 pages, 20 figures, uses epsf. 5/29/01 revision responds to referee's Comments, changes pion fits and tables, and corrects Fig. 10 and some minor error

Baryon Density Correlations in High Temperature Hadronic Matter

As part of an ongoing effort to characterize the high temperature phase of QCD, in a numerical simulation using the staggered fermion scheme, we measure the quark baryon density in the vicinity of a fixed test quark at high temperature and compare it with similar measurements at low temperature and at the crossover temperature. We find an extremely weak correlation at high temperature, suggesting that small color singlet clusters are unimportant in the thermal ensemble. We also find that at $T = 0.75\ T_c$ the total induced quark number shows a surprisingly large component attributable to baryonic screening. A companion simulation of a simple flux tube model produces similar results and also suggests a plausible phenomenological scenario: As the crossover temperature is approached from below, baryonic states proliferate. Above the crossover temperature the mean size of color singlet clusters grows explosively, resulting in an effective electrostatic deconfinement.Comment: 26 pp, RevTeX, 12 postscript figures, combined in a single shell archive file. (Also available in 13 postscript files by anonymous ftp from einstein.physics.utah.edu, /pub/milc/paper.sh.Z.

Two-Flavor Staggered Fermion Thermodynamics at N_t = 12

We present results of an ongoing study of the nature of the high temperature crossover in QCD with two light fermion flavors. These results are obtained with the conventional staggered fermion action at the smallest lattice spacing to date---approximately 0.1 fm. Of particular interest are a study of the temperature of the crossover a determination of the induced baryon charge and baryon susceptibility, the scalar susceptibility, and the chiral order parameter, used to test models of critical behavior associated with chiral symmetry restoration. From our new data and published results for N_t = 4, 6, and 8, we determine the QCD magnetic equation of state from the chiral order parameter using O(4) and mean field critical exponents and compare it with the corresponding equation of state obtained from an O(4) spin model and mean field theory. We also present a scaling analysis of the Polyakov loop, suggesting a temperature dependent ``constituent quark free energy.''Comment: LaTeX 25 pages, 15 Postscript figure

Quenched hadron spectroscopy with improved staggered quark action

We investigate light hadron spectroscopy with an improved quenched staggered quark action. We compare the results obtained with an improved gauge plus an improved quark action, an improved gauge plus standard quark action, and the standard gauge plus standard quark action. Most of the improvement in the spectroscopy results is due to the improved gauge sector. However, the improved quark action substantially reduces violations of Lorentz invariance, as evidenced by the meson dispersion relations.Comment: New references adde