W+2jets production at Tevatron -- VECBOS and CompHEP comparison

Results of calculation of all subprocesses in proton-antiproton collisions which contribute to the W+2jets final state are presented at Tevatron energy. The calculation has been carried out by means of the CompHEP software package. A detail comparison with VECBOS generator results for cross sections and various distributions shows an agreement at the level of Monte-Carlo accuracy. Therefore the additional independent check of VECBOS generator has been done. In complement to the VECBOS generator a new generator based on CompHEP allows to study individual subprocesses like $Wb\bar{b}$ or $Wc\bar{c}$. The last point is important, for instance, for study $Wb\bar{b}$ part of the background for single top or Standard Model Higgs signal at Tevatron.Comment: 8 pages including 4 figures as a gzipped postscript fil

Reconstruction of potential energy profiles from multiple rupture time distributions

We explore the mathematical and numerical aspects of reconstructing a potential energy profile of a molecular bond from its rupture time distribution. While reliable reconstruction of gross attributes, such as the height and the width of an energy barrier, can be easily extracted from a single first passage time (FPT) distribution, the reconstruction of finer structure is ill-conditioned. More careful analysis shows the existence of optimal bond potential amplitudes (represented by an effective Peclet number) and initial bond configurations that yield the most efficient numerical reconstruction of simple potentials. Furthermore, we show that reconstruction of more complex potentials containing multiple minima can be achieved by simultaneously using two or more measured FPT distributions, obtained under different physical conditions. For example, by changing the effective potential energy surface by known amounts, additional measured FPT distributions improve the reconstruction. We demonstrate the possibility of reconstructing potentials with multiple minima, motivate heuristic rules-of-thumb for optimizing the reconstruction, and discuss further applications and extensions.Comment: 20 pages, 9 figure

Optimized Neural Networks to Search for Higgs Boson Production at the Tevatron

An optimal choice of proper kinematical variables is one of the main steps in using neural networks (NN) in high energy physics. Our method of the variable selection is based on the analysis of a structure of Feynman diagrams (singularities and spin correlations) contributing to the signal and background processes. An application of this method to the Higgs boson search at the Tevatron leads to an improvement in the NN efficiency by a factor of 1.5-2 in comparison to previous NN studies.Comment: 4 pages, 4 figures, partially presented in proceedings of ACAT'02 conferenc

W + 2 jets production at Tevatron: VECBOS and CompHEP comparison

Results of calculation of all subprocesses in proton-antiproton collisions which contribute to the W+2jets final state are presented at Tevatron energy. The calculation has been carried out by means of the CompHEP software package. A detail comparison with VECBOS generator results for cross sections and various distributions shows an agreement at the level of Monte-Carlo accuracy. Therefore the independent check of VECBOS generator has been done. In addition to the VECBOS generator a new generator based on CompHEP allows to study individual subprocesses like Wb\bar{b} or Wc\bar{c}. The last point is important, for instance, for study Wb\bar{b} part of the background for single top or Standard Model Higgs signal at Tevatron

LCG MCDB -- a Knowledgebase of Monte Carlo Simulated Events

In this paper we report on LCG Monte Carlo Data Base (MCDB) and software which has been developed to operate MCDB. The main purpose of the LCG MCDB project is to provide a storage and documentation system for sophisticated event samples simulated for the LHC collaborations by experts. In many cases, the modern Monte Carlo simulation of physical processes requires expert knowledge in Monte Carlo generators or significant amount of CPU time to produce the events. MCDB is a knowledgebase mainly dedicated to accumulate simulated events of this type. The main motivation behind LCG MCDB is to make the sophisticated MC event samples available for various physical groups. All the data from MCDB is accessible in several convenient ways. LCG MCDB is being developed within the CERN LCG Application Area Simulation project

Refolding dynamics of stretched biopolymers upon force quench

Single molecule force spectroscopy methods can be used to generate folding trajectories of biopolymers from arbitrary regions of the folding landscape. We illustrate the complexity of the folding kinetics and generic aspects of the collapse of RNA and proteins upon force quench, using simulations of an RNA hairpin and theory based on the de Gennes model for homopolymer collapse. The folding time, $\tau_F$, depends asymmetrically on $\delta f_S = f_S - f_m$ and $\delta f_Q = f_m - f_Q$ where $f_S$ ($f_Q$) is the stretch (quench) force, and $f_m$ is the transition mid-force of the RNA hairpin. In accord with experiments, the relaxation kinetics of the molecular extension, $R(t)$, occurs in three stages: a rapid initial decrease in the extension is followed by a plateau, and finally an abrupt reduction in $R(t)$ that occurs as the native state is approached. The duration of the plateau increases as $\lambda =\tau_Q/\tau_F$ decreases (where $\tau_Q$ is the time in which the force is reduced from $f_S$ to $f_Q$). Variations in the mechanisms of force quench relaxation as $\lambda$ is altered are reflected in the experimentally measurable time-dependent entropy, which is computed directly from the folding trajectories. An analytical solution of the de Gennes model under tension reproduces the multistage stage kinetics in $R(t)$. The prediction that the initial stages of collapse should also be a generic feature of polymers is validated by simulation of the kinetics of toroid (globule) formation in semiflexible (flexible) homopolymers in poor solvents upon quenching the force from a fully stretched state. Our findings give a unified explanation for multiple disparate experimental observations of protein folding.Comment: 31 pages 11 figure