Intrinsic flexibility of snRNA hairpin loops facilitates protein binding

Stem–loop II of U1 snRNA and Stem–loop IV of U2 snRNA typically have 10 or 11 nucleotides in their loops. The fluorescent nucleobase 2-aminopurine was used as a substitute for the adenines in each loop to probe the local and global structures and dynamics of these unusually long loops. Using steady-state and time-resolved fluorescence, we find that, while the bases in the loops are stacked, they are able to undergo significant local motion on the picosecond/nanosecond timescale. In addition, the loops have a global conformational change at low temperatures that occurs on the microsecond timescale, as determined using laser T-jump experiments. Nucleobase and loop motions are present at temperatures far below the melting temperature of the hairpin stem, which may facilitate the conformational change required for specific protein binding to these RNA loops

Higgs boson production with one bottom quark jet at hadron colliders

We present total rates and kinematic distributions for the associated production of a single bottom quark and a Higgs boson at the Tevatron and the LHC. We include next-to-leading order QCD corrections and compare the results obtained in the four and five flavor number schemes for parton distribution functions.Comment: 4 pages, 8 figures, RevTeX

Surface accuracy measurement sensor test on a 50-meter antenna surface model

The Surface Accuracy Measurement Sensor (SAMS) is a telescope with a focal plane photo electric detector that senses the lateral position of light source targets in its field of view. After extensive laboratory testing the engineering breadboard sensor system was installed and tested on a 30 degree segment of a 50-meter diameter, mesh surface, antenna model. Test results correlated well with the laboratory tests and indicated accuracies of approximately 0.59 arc seconds at 21 meters range. Test results are presented and recommendations given for sensor improvements

Probing Topcolor-Assisted Technicolor from Like-sign Top Pair Production at LHC

The topcolor-assisted technicolor (TC2) theory predicts tree-level flavor-changing neutral-current (FCNC) top quark Yukawa couplings with top-pions. Such FCNC interactions will induce like-sign top quark pair productions at CERN Large Hadron Collider (LHC). While these rare productions are far below the observable level in the Standard Model and other popular new physics models such as the Minimal Supersymmetric Model, we find that in a sound part of parameter space the TC2 model can enhance the production cross sections to several tens of fb and thus may be observable at the LHC due to rather low backgrounds. Searching for these productions at the LHC will serve as an excellent probe for the TC2 model.Comment: 10 pages, 6 fig

New results on rewrite-based satisfiability procedures

Program analysis and verification require decision procedures to reason on theories of data structures. Many problems can be reduced to the satisfiability of sets of ground literals in theory T. If a sound and complete inference system for first-order logic is guaranteed to terminate on T-satisfiability problems, any theorem-proving strategy with that system and a fair search plan is a T-satisfiability procedure. We prove termination of a rewrite-based first-order engine on the theories of records, integer offsets, integer offsets modulo and lists. We give a modularity theorem stating sufficient conditions for termination on a combinations of theories, given termination on each. The above theories, as well as others, satisfy these conditions. We introduce several sets of benchmarks on these theories and their combinations, including both parametric synthetic benchmarks to test scalability, and real-world problems to test performances on huge sets of literals. We compare the rewrite-based theorem prover E with the validity checkers CVC and CVC Lite. Contrary to the folklore that a general-purpose prover cannot compete with reasoners with built-in theories, the experiments are overall favorable to the theorem prover, showing that not only the rewriting approach is elegant and conceptually simple, but has important practical implications.Comment: To appear in the ACM Transactions on Computational Logic, 49 page

Understanding single-top-quark production and jets at hadron colliders

I present an analysis of fully differential single-top-quark production plus jets at next-to-leading order. I describe the effects of jet definitions, top-quark mass, and higher orders on the shapes and normalizations of the kinematic distributions, and quantify all theoretical uncertainties. I explain how to interpret next-to-leading-order jet calculations, and compare them to showering event generators. Using the program ZTOP, I show that HERWIG and PYTHIA significantly underestimate both s-channel and t-channel single-top-quark production, and propose a scheme to match the relevant samples to the next-to-leading-order predictions.Comment: 40 pgs., revtex4, 35 ps figs; added Fig. 4, 1 Ref., minor clarifications, to appear in Phys. Rev.

EPS09 - a New Generation of NLO and LO Nuclear Parton Distribution Functions

We present a next-to-leading order (NLO) global DGLAP analysis of nuclear parton distribution functions (nPDFs) and their uncertainties. Carrying out an NLO nPDF analysis for the first time with three different types of experimental input -- deep inelastic $\ell$+A scattering, Drell-Yan dilepton production in p+$A$ collisions, and inclusive pion production in d+Au and p+p collisions at RHIC -- we find that these data can well be described in a conventional collinear factorization framework. Although the pion production has not been traditionally included in the global analyses, we find that the shape of the nuclear modification factor $R_{\rm dAu}$ of the pion $p_T$-spectrum at midrapidity retains sensitivity to the gluon distributions, providing evidence for shadowing and EMC-effect in the nuclear gluons. We use the Hessian method to quantify the nPDF uncertainties which originate from the uncertainties in the data. In this method the sensitivity of $\chi^2$ to the variations of the fitting parameters is mapped out to orthogonal error sets which provide a user-friendly way to calculate how the nPDF uncertainties propagate to any factorizable nuclear cross-section. The obtained NLO and LO nPDFs and the corresponding error sets are collected in our new release called {\ttfamily EPS09}. These results should find applications in precision analyses of the signatures and properties of QCD matter at the LHC and RHIC.Comment: 34 pages, 16 figures. The version accepted for publicatio

Pion Excess, Nuclear Correlations, and the Interpretation of (p⃗,n⃗\vec p, \vec n) Spin Transfer Experiments

Conventional theories of nuclear interactions predict a net increase in the distribution of virtual pions in nuclei relative to free nucleons. Analysis of data from several nuclear experiments has led to claims of evidence against such a pion excess. These conclusions are usually based on a collective theory (RPA) of the pions, which may be inadequate. The issue is the energy dependence of the nuclear response, which differs for theories with strong NN correlations from the RPA predictions. In the present paper, information about the energy dependence is extracted from sum rules, which are calculated for such a correlated, noncollective nuclear theory. The results lead to much reduced sensitivity of nuclear reactions to the correlations that are responsible for the pion excess. The primary example is $(\vec p,\vec n)$ spin transfer, for which the expected effects are found to be smaller than the experimental uncertainties. The analysis has consequences for Deep Inelastic Scattering (DIS) experiments as well.Comment: 16 pages, LaTeX, no figures, submitted to Phys. Rev.

Measurement of direct photon production at Tevatron fixed target energies

Measurements of the production of high transverse momentum direct photons by a 515 GeV/c piminus beam and 530 and 800 GeV/c proton beams in interactions with beryllium and hydrogen targets are presented. The data span the kinematic ranges of 3.5 < p_T < 12 GeV/c in transverse momentum and 1.5 units in rapidity. The inclusive direct-photon cross sections are compared with next-to-leading-order perturbative QCD calculations and expectations based on a phenomenological parton-k_T model.Comment: RevTeX4, 23 pages, 32 figures, submitted to Phys. Rev.