DNA Breathing Dynamics in the Presence of a Terahertz Field

We consider the influence of a terahertz field on the breathing dynamics of double-stranded DNA. We model the spontaneous formation of spatially localized openings of a damped and driven DNA chain, and find that linear instabilities lead to dynamic dimerization, while true local strand separations require a threshold amplitude mechanism. Based on our results we argue that a specific terahertz radiation exposure may significantly affect the natural dynamics of DNA, and thereby influence intricate molecular processes involved in gene expression and DNA replication

Branching Transport Model of Alkali-Halide Scintillators

We measure the time dependence of the scintillator light-emission pulses in NaI(Tl) crystals at different temperatures, after activation by gamma rays. We confirm that there are two main nonexponential components to the time decay and find that their amplitude ratio shows Arrhenius temperature dependence. We explain these nonexponential components as arising from two competing mechanisms of carrier transport to the Tl activation levels. The total light output of the NaI(Tl) detectors shows a linear temperature dependence explained by our model

Magnetic field - temperature phase diagram of quasi-two-dimensional organic superconductor lambda-(BETS)_2 GaCl_4 studied via thermal conductivity

The thermal conductivity kappa of the quasi-two-dimensional (Q2D) organic superconductor lambda-(BETS)_2 GaCl_4 was studied in the magnetic field H applied parallel to the Q2D plane. The phase diagram determined from this bulk measurement shows notable dependence on the sample quality. In dirty samples the upper critical field H_{c2} is consistent with the Pauli paramagnetic limiting, and a sharp change is observed in kappa(H) at H_{c2 parallel}. In contrast in clean samples H_{c2}(T) shows no saturation towards low temperatures and the feature in kappa(H) is replaced by two slope changes reminiscent of second-order transitions. The peculiarity was observed below ~ 0.33T_c and disappeared on field inclination to the plane when the orbital suppression of superconductivity became dominant. This behavior is consistent with the formation of a superconducting state with spatially modulated order parameter in clean samples.Comment: 10 pages, 8 figures, new figure (Fig.5) and references added, title change

Non-perturbative effects and wall-crossing from topological strings

We argue that the Gopakumar-Vafa interpretation of the topological string partition function can be used to compute and resum certain non-perturbative brane instanton effects of type II CY compactifications. In particular the topological string A-model encodes the non-perturbative corrections to the hypermultiplet moduli space metric from general D1/D(-1)-brane instantons in 4d N=2 IIB models. We also discuss the reduction to 4d N=1 by fluxes and/or orientifolds and/or D-branes, and the prospects to resum brane instanton contributions to non-perturbative superpotentials. We argue that the connection between non-perturbative effects and the topological string underlies the continuity of non-perturbative effects across lines of BPS stability. We also confirm this statement in mirror B-model matrix model examples, relating matrix model instantons to non-perturbative D-brane instantons. The computation of non-perturbative effects from the topological string requires a 3d circle compactification and T-duality, relating effects from particles and instantons, reminiscent of that involved in the physical derivation of the Kontsevich-Soibelmann wall-crossing formula.Comment: 44 pages, 5 figures. Major revisions, new results added, previous results unchanged, refs adde

Direct Measurement of the Pseudoscalar Decay Constant fD+

The absolute branching fraction of $D^+ \to \mu^+ \nu$ has been directly measured by an analysis of a data sample of about 33 ${\rm pb^{-1}}$ collected around $\sqrt{s}=3.773$ GeV with the BES-II at the BEPC. At these energies, $D^-$ meson is produced in pair as $e^+e^-\to D^{+} D^{-}$. A total of $5321 \pm 149 \pm 160$ $D^-$ mesons are reconstructed from this data set. In the recoil side of the tagged $D^-$ mesons, $2.67\pm1.74$ purely leptonic decay events of $D^+ \to \mu^+ \nu$ are observed. This yields a branching fraction of $BF(D^+ \to \mu^+ \nu_{\mu}) = (0.122^{+0.111}_{-0.053}\pm 0.010)$, and a corresponding pseudoscalar decay constant $f_{D^+}=(371^{+129}_{-119}\pm 25)$ MeV.Comment: 7 pages, 8 figures, Submitted to Physics Letters B in October, 200

Black Hole Thermodynamics and Statistical Mechanics

We have known for more than thirty years that black holes behave as thermodynamic systems, radiating as black bodies with characteristic temperatures and entropies. This behavior is not only interesting in its own right; it could also, through a statistical mechanical description, cast light on some of the deep problems of quantizing gravity. In these lectures, I review what we currently know about black hole thermodynamics and statistical mechanics, suggest a rather speculative "universal" characterization of the underlying states, and describe some key open questions.Comment: 35 pages, Springer macros; for the Proceedings of the 4th Aegean Summer School on Black Hole

Adaptive Filtering And Indexing For Image Databases

In this paper we combine image feature extraction with indexing techniques for efficient retrieval in large texture images databases. A 2D image signal is processed using a set of Gabor filters to derive a 120 component feature vector representing the image. The feature components are ordered based on the relative importance in characterizing a given texture pattern, and this facilitates the development of efficient indexing mechanisms. We propose three different sets of indexing features based on the "best feature", the average feature and a combination of both. We investigate the tradeoff between accuracy and discriminating power using these different indexing approaches, and conclude that the combination of "best feature" and the average feature gives the best results. Keywords: Texture Images, Gabor Filters, Multi-dimensional Indexing, Indexing Structures. 1 INTRODUCTION Searching a large database of image data poses many challenging problems. In particular, issues related to ima..

Mass spectral molecular networking of living microbial colonies

Integrating the governing chemistry with the genomics and phenotypes of microbial colonies has been a “holy grail” in microbiology. This work describes a highly sensitive, broadly applicable, and cost-effective approach that allows metabolic profiling of live microbial colonies directly from a Petri dish without any sample preparation. Nanospray desorption electrospray ionization mass spectrometry (MS), combined with alignment of MS data and molecular networking, enabled monitoring of metabolite production from live microbial colonies from diverse bacterial genera, including Bacillus subtilis, Streptomyces coelicolor, Mycobacterium smegmatis, and Pseudomonas aeruginosa. This work demonstrates that, by using these tools to visualize small molecular changes within bacterial interactions, insights can be gained into bacterial developmental processes as a result of the improved organization of MS/MS data. To validate this experimental platform, metabolic profiling was performed on Pseudomonas sp. SH-C52, which protects sugar beet plants from infections by specific soil-borne fungi [R. Mendes et al. (2011) Science 332:1097–1100]. The antifungal effect of strain SH-C52 was attributed to thanamycin, a predicted lipopeptide encoded by a nonribosomal peptide synthetase gene cluster. Our technology, in combination with our recently developed peptidogenomics strategy, enabled the detection and partial characterization of thanamycin and showed that it is a monochlorinated lipopeptide that belongs to the syringomycin family of antifungal agents. In conclusion, the platform presented here provides a significant advancement in our ability to understand the spatiotemporal dynamics of metabolite production in live microbial colonies and communitie