Measurement of cos2beta in B;{0}-->D;{(*)}h;{0} decays with a time-dependent Dalitz plot analysis of D-->K_{s};{0}pi;{+}pi;{-}.

We study the time-dependent Dalitz plot of D-->K_{S};{0}pi;{+}pi;{-} in B;{0}-->D;{(*)}h;{0} decays, where h;{0} is a pi;{0}, eta, eta;{'}, or omega meson and D;{*}-->Dpi;{0}, using a data sample of 383x10;{6} Upsilon(4S)-->BB[over ] decays collected with the BABAR detector. We determine cos2beta=0.42+/-0.

Observation of the decay B+ --> K+K-pi+.

We report the observation of charmless hadronic decays of charged B mesons to the final state K{+}K{-}pi{+}. Using a data sample of 347.5 fb{-1} collected at the Upsilon(4S) resonance with the BABAR detector, we observe 429+/-43 signal events with a significance of 9.

Amplitude analysis of the B+/--->phiK*(892)+/- decay.

We perform an amplitude analysis of B+/--->phi(1020)K*(892)+/- decay with a sample of about 384 x 10(6) BB[over ] pairs recorded with the BABAR detector. Overall, twelve parameters are measured, including the fractions of longitudinal fL and parity-odd transverse f perpendicular amplitudes, branching fraction, strong phases, and six parameters sensitive to CP violation. We use the dependence on the Kpi invariant mass of the interference between the JP=1(-) and 0+ Kpi components to resolve the discrete ambiguity in the determination of the strong and weak phases.

Search for the Decay B+-->K+ tau-/+ mu+/-.

We present a search for the lepton flavor violating decay B+-->K+ tau-/+ mu+/- using 383 x 10;{6} BB[over ] events collected by the BABAR experiment. The branching fraction for this decay can be substantially enhanced in new physics models. The kinematics of the tau from the signal B decay are inferred from the K+, mu, and other B in the event, which is fully reconstructed in one of a variety of hadronic decay modes, allowing the signal B candidate to be fully reconstructed.

Observation of the semileptonic decays B-->D*tau-nutau and evidence for B-->Dtau-nutau.

We present measurements of the semileptonic decays B--->D0tau-nutau, B--->D*0tau-nutau, B0-->D+tau-nutau, and B0-->D*+tau-nutau, which are potentially sensitive to non-standard model amplitudes. The data sample comprises 232x10(6) Upsilon(4S)-->BB decays collected with the BABAR detector. From a combined fit to B- and B0 channels, we obtain the branching fractions B(B-->Dtau-nutau)=(0.

Exclusive branching-fraction measurements of semileptonic tau decays into three charged hadrons, into phipi(-)nu tau, and into phi K(-)nu tau.

Using a data sample corresponding to an integrated luminosity of 342 fb(-1) collected with the BABAR detector at the SLAC PEP-II electron-positron storage ring operating at a center-of-mass energy near 10.58 GeV, we measure B(tau(-)--> pi(-)pi(-)pi+nu(tau)(ex.K(S0))=(8.

Improved measurement of CP violation in neutral B decays to cc[over]s.

We present updated measurements of time-dependent CP asymmetries in fully-reconstructed neutral B decays to several CP eigenstates containing a charmonium meson. The measurements use a data sample of (383+/-4)x10(6) Upsilon(4S)-->BB[over] decays collected with the BABAR detector at the PEP-II B factory. We determine sin2beta = 0.

Measurements of CP-violating asymmetries in the decay B0-->K+K-K0.

We analyze the decay B0-->K+K-K0 using 383 x 10(6) BB events collected by the BABAR detector at SLAC to extract CP violation parameter values over the Dalitz plot. Combining all K+K-K0 events, we find ACP=-0.015+/-0.

Environmental risks of farmed and barren alkaline coal ash landfills in Tuzla, Bosnia and Herzegovina.

The disposal of coal combustion residues (CCR) has led to a significant consumption of land in the West Balkan region. In Tuzla (Bosnia and Herzegovina) we studied previously soil-covered (farmed) and barren CCR landfills including management practises, field ageing of CCR and the transfer of trace elements into crops, wild plants and wastewaters. Soil tillage resulted in mixing of cover soil with CCR.

Measurement of the Time-Dependent CP Asymmetry in B;{0}-->D_{CP};{(*)}h;{0} Decays.

We report a measurement of the time-dependent CP-asymmetry parameters S and C in color-suppressed B{0}-->D{(*)0}h{0} decays, where h{0} is a pi{0}, eta, or omega meson, and the decays to one of the CP eigenstates K+K-, K{S}{0}pi{0}, or K{S}{0}omega. The data sample consists of 383 x 10{6} Upsilon(4S)-->BB decays collected with the BABAR detector at the PEP-II asymmetric-energy B factory at SLAC. The results are S=-0.

Measurement of CP-violating asymmetries in B0-->D*(+/-)D(-/+).

We present updated measurements of CP-violating asymmetries in the decays B0-->D*(+/-)D(-/+) and B0-->D+D- using (383+/-4) x 10(6)B(B) pairs collected by the BABAR detector at the SLAC PEP-II B factory. We determine the time-integrated CP asymmetry A(D*(+/-)D(-/+))=0.12+/-0.

Production and decay of Omegac0.

We present an analysis of inclusive Omega(c)(0) baryon production and decays in 230.5 fb(-1) of data recorded with the BABAR detector. Omega(c)(0) baryons are reconstructed in four final states (Omega(-)pi(+), Omega(-)pi(+)pi(0), Omega(-)pi(+)pi(+)pi(-), Xi(-)K(-)pi(+)pi(+)) and the corresponding ratios of branching fractions are measured.

Search for the rare decay B-->pil+ l-.

We have performed a search for the flavor-changing neutral-current decays B-->pil+ l-, where l+ l- is either e+ e- or mu+ mu-, using a sample of 230 x 10(6) Upsilon(4S)-->BB decays collected with the BABAR detector. We observe no evidence of a signal and measure the upper limit on the isospin-averaged branching fraction to be B(B-->pil+ l-)<9.1 x 10(-8) at 90% confidence level.

Receptor-specific scoring functions derived from quantum chemical models improve affinity estimates for in-silico drug discovery.

The adaptation of forcefield-based scoring function to specific receptors remains an important challenge for in-silico drug discovery. Here we compare binding energies of forcefield-based scoring functions with models that are reparameterized on the basis of large-scale quantum calculations of the receptor. We compute binding energies of eleven ligands to the human estrogen receptor subtype alpha (ERalpha) and four ligands to the human retinoic acid receptor of isotype gamma (RARgamma).

Observation of CP violation in B(0) --> K(+)pi(-) and B(0) --> pi(+)pi(-).

We report observations of CP violation in the decays B(0) --> K(+)pi(-) and B(0) --> pi(+)pi(-) in a sample of 383 x 10(6) Upsilon(4S) --> BB[over] events. We find 4372+/-82 B(0) --> K(+)pi(-) decays and measure the direct CP-violating charge asymmetry A(Kpi) = -0.107+/-0.

Evidence of a broad structure at an invariant mass of 4.32 GeV/c2 in the reaction e+e- --> pi+pi-psi(2S) measured at BABAR.

We present a measurement of the cross section of the process e(+)e(-)-->pi(+)pi(-)psi(2S) from threshold up to 8 GeV center-of-mass energy using events containing initial-state radiation, produced at the SLAC PEP-II e(+)e(-) storage rings. The study is based on 298 fb(-1) of data recorded with the BABAR detector. A structure is observed in the cross section not far above threshold, near 4.

Measurement of branching fractions and mass spectra of B-->Kpipigamma.

We present a measurement of the partial branching fractions and mass spectra of the exclusive radiative penguin processes B-->Kpipigamma in the range m(Kpipi)<1.8 GeV/c(2). We reconstruct four final states: K(+)pi(-)pi(+)gamma, K(+)pi(-)pi(0)gamma, K(S)(0)pi(-)pi(+)gamma, and K(S)(0)pi(+)pi(0)gamma, where K(S)(0)-->pi(+)pi(-).

Evidence for D0-D0 mixing.

We present evidence for D0-D(0) mixing in D(0)-->K(+)pi(-) decays from 384 fb(-1) of e(+)e(-) colliding-beam data recorded near square root s=10.6 GeV with the BABAR detector at the PEP-II storage rings at the Stanford Linear Accelerator Center. We find the mixing parameters x('2)=[-0.

Measurements of CP-violating asymmetries in B0-->a1+/-(1260)pi-/+ decays.

We present measurements of CP-violating asymmetries in the decay B(0)-->a(1)(+/-)(1260)pi(-/+) with a(1)(+/-)(1260)-->pi(-/+)pi(+/-)pi(+/-). The data sample corresponds to 384x10(6) BB[over ] pairs collected with the BABAR detector at the PEP-II asymmetric B factory at SLAC. We measure the CP-violating asymmetry A(CP)(a(1)pi)=-0.

Branching fraction measurements of B+-->rho+gamma, B0-->rho0gamma, and B0-->omegagamma.

We present a study of the decays B+-->rho+gamma, B0-->rho0gamma, and B0-->omegagamma. The analysis is based on data containing 347 x 10(6) BB[over ] events recorded with the BABAR detector at the PEP-II asymmetric B factory. We measure the branching fractions B(B+-->rho+)gamma)=(1.

Measurement of the pseudoscalar decay constant fDs using charm-tagged events in e+e- collisions at square root s=10.58 GeV.

Using 230.2 fb-1 of e+e- annihilation data collected with the BABAR detector at and near the peak of the Upsilon(4S) resonance, 489+/-55 events containing the pure leptonic decay Ds+-->micro;+numicro have been isolated in charm-tagged events. The ratio of partial widths Gamma(D+-->micro+numicro)/Gamma(Ds+-->phipi+) is measured to be 0.

Evidence for B(0) --> rho(0)rho(0) decays and implications for the Cabibbo-Kobayashi-Maskawa angle alpha.

We search for the decays B(0) --> rho(0)rho(0), B(0) --> rho(0)f(0)(980), and B(0) --> f(0)(980)f(0)(980) in a sample of about 384 x 10(6) Upsilon(4S) --> BB[over] decays collected with the BABAR detector at the PEP-II asymmetric-energy e(+)e(-) collider at Stanford Linear Accelerator Center. We find evidence for B(0) --> rho(0)rho(0) with 3.5 sigma significance and measure the branching fraction B = (1.

All-atom de novo protein folding with a scalable evolutionary algorithm.

The search for efficient and predictive methods to describe the protein folding process at the all-atom level remains an important grand-computational challenge. The development of multi-teraflop architectures, such as the IBM BlueGene used in this study, has been motivated in part by the large computational requirements of such studies. Here we report the predictive all-atom folding of the forty-amino acid HIV accessory protein using an evolutionary stochastic optimization technique.

De novo Folding of Two-Helix Potassium Channel Blockers with Free-Energy Models and Molecular Dynamics.

We report the predictive de novo folding of three two-helix proteins using the free-energy protein forcefield PFF01. Starting from random initial conformations 40-90% of the members of the simulated ensembles converge to near-native conformations. The energetically lowest conformations approach the conserved part of the native conformations to within 1.

Accuracy of binding mode prediction with a cascadic stochastic tunneling method.

We investigate the accuracy of the binding modes predicted for 83 complexes of the high-resolution subset of the ASTEX/CCDC receptor-ligand database using the atomistic FlexScreen approach with a simple forcefield-based scoring function. The median RMS deviation between experimental and predicted binding mode was just 0.83 A.