On an Enhancement of RNA Probing Data Using Information Theory

Identifying the secondary structure of an RNA is crucial for understanding its diverse regulatory functions. This paper focuses on how to enhance target identification in a Boltzmann ensemble of structures via chemical probing data. We employ an information-theoretic approach to solve the problem, via considering a variant of the R\'{e}nyi-Ulam game. Our framework is centered around the ensemble tree, a hierarchical bi-partition of the input ensemble, that is constructed by recursively querying about whether or not a base pair of maximum information entropy is contained in the target. These queries are answered via relating local with global probing data, employing the modularity in RNA secondary structures. We present that leaves of the tree are comprised of sub-samples exhibiting a distinguished structure with high probability. In particular, for a Boltzmann ensemble incorporating probing data, which is well established in the literature, the probability of our framework correctly identifying the target in the leaf is greater than $90\%$

Extremal Bundles on Calabi-Yau Threefolds

We study constructions of stable holomorphic vector bundles on Calabi–Yau threefolds, especially those with exact anomaly cancellation which we call extremal. By going through the known databases we find that such examples are rare in general and can be ruled out for the spectral cover construction for all elliptic threefolds. We then introduce a general Hartshorne–Serre construction and use it to find extremal bundles of general ranks and study their stability, as well as computing their Chern numbers. Based on both existing and our new constructions, we revisit the DRY conjecture for the existence of stable sheaves on Calabi–threefolds, and provide theoretical and numerical evidence for its correctness. Our construction can be easily generalized to bundles with no extremal conditions imposed

Partonic flow and ϕ\phi-meson production in Au+Au collisions at sNN\sqrt{s_{NN}} = 200 GeV

We present first measurements of the $\phi$-meson elliptic flow ($v_{2}(p_{T})$) and high statistics $p_{T}$ distributions for different centralities from $\sqrt{s_{NN}}$ = 200 GeV Au+Au collisions at RHIC. In minimum bias collisions the $v_{2}$ of the $\phi$ meson is consistent with the trend observed for mesons. The ratio of the yields of the $\Omega$ to those of the $\phi$ as a function of transverse momentum is consistent with a model based on the recombination of thermal $s$ quarks up to $p_{T}\sim 4$ GeV/$c$, but disagrees at higher momenta. The nuclear modification factor ($R_{CP}$) of $\phi$ follows the trend observed in the $K^{0}_{S}$ mesons rather than in $\Lambda$ baryons, supporting baryon-meson scaling. Since $\phi$-mesons are made via coalescence of seemingly thermalized $s$ quarks in central Au+Au collisions, the observations imply hot and dense matter with partonic collectivity has been formed at RHIC.Comment: 6 pages, 4 figures, submit to PR

Plasma Wakefield Acceleration with a Modulated Proton Bunch

The plasma wakefield amplitudes which could be achieved via the modulation of a long proton bunch are investigated. We find that in the limit of long bunches compared to the plasma wavelength, the strength of the accelerating fields is directly proportional to the number of particles in the drive bunch and inversely proportional to the square of the transverse bunch size. The scaling laws were tested and verified in detailed simulations using parameters of existing proton accelerators, and large electric fields were achieved, reaching 1 GV/m for LHC bunches. Energy gains for test electrons beyond 6 TeV were found in this case.Comment: 9 pages, 7 figure

The energy dependence of ptp_t angular correlations inferred from mean-ptp_{t} fluctuation scale dependence in heavy ion collisions at the SPS and RHIC

We present the first study of the energy dependence of $p_t$ angular correlations inferred from event-wise mean transverse momentum fluctuations in heavy ion collisions. We compare our large-acceptance measurements at CM energies $\sqrt{s_{NN}} =$ 19.6, 62.4, 130 and 200 GeV to SPS measurements at 12.3 and 17.3 GeV. $p_t$ angular correlation structure suggests that the principal source of $p_t$ correlations and fluctuations is minijets (minimum-bias parton fragments). We observe a dramatic increase in correlations and fluctuations from SPS to RHIC energies, increasing linearly with $\ln \sqrt{s_{NN}}$ from the onset of observable jet-related fluctuations near 10 GeV.Comment: 10 pages, 4 figure

Measurement of Transverse Single-Spin Asymmetries for Di-Jet Production in Proton-Proton Collisions at s=200\sqrt{s} = 200 GeV

We report the first measurement of the opening angle distribution between pairs of jets produced in high-energy collisions of transversely polarized protons. The measurement probes (Sivers) correlations between the transverse spin orientation of a proton and the transverse momentum directions of its partons. With both beams polarized, the wide pseudorapidity ($-1 \leq \eta \leq +2$) coverage for jets permits separation of Sivers functions for the valence and sea regions. The resulting asymmetries are all consistent with zero and considerably smaller than Sivers effects observed in semi-inclusive deep inelastic scattering (SIDIS). We discuss theoretical attempts to reconcile the new results with the sizable transverse spin effects seen in SIDIS and forward hadron production in pp collisions.Comment: 6 pages total, 1 Latex file, 3 PS files with figure

Energy and system size dependence of \phi meson production in Cu+Cu and Au+Au collisions

We study the beam-energy and system-size dependence of \phi meson production (using the hadronic decay mode \phi -- K+K-) by comparing the new results from Cu+Cu collisions and previously reported Au+Au collisions at \sqrt{s_NN} = 62.4 and 200 GeV measured in the STAR experiment at RHIC. Data presented are from mid-rapidity (|y|<0.5) for 0.4 < pT < 5 GeV/c. At a given beam energy, the transverse momentum distributions for \phi mesons are observed to be similar in yield and shape for Cu+Cu and Au+Au colliding systems with similar average numbers of participating nucleons. The \phi meson yields in nucleus-nucleus collisions, normalised by the average number of participating nucleons, are found to be enhanced relative to those from p+p collisions with a different trend compared to strange baryons. The enhancement for \phi mesons is observed to be higher at \sqrt{s_NN} = 200 GeV compared to 62.4 GeV. These observations for the produced \phi(s\bar{s}) mesons clearly suggest that, at these collision energies, the source of enhancement of strange hadrons is related to the formation of a dense partonic medium in high energy nucleus-nucleus collisions and cannot be alone due to canonical suppression of their production in smaller systems.Comment: 20 pages and 5 figure

Minijet deformation and charge-independent angular correlations on momentum subspace (η,ϕ) in Au-Au collisions at √sNN=130 GeV

Measurements of two-particle correlations on angular difference variables η1−η2 (pseudorapidity) and ϕ1−ϕ2 (azimuth) are presented for all primary charged hadrons with transverse momentum 0.15≤pt≤2 GeV/c and |η|≤1.3 from Au-Au collisions at √sNN=130 GeV. Large-amplitude correlations are observed over a broad range in relative angles where distinct structures appear on the same-side and away-side (i.e., relative azimuth less than π/2 or greater than π/2). The principal correlation structures include that associated with elliptic flow plus a strong, same-side peak. It is hypothesized that the latter results from correlated hadrons associated with semi-hard parton scattering in the early stage of the heavy-ion collision which produces a jet-like correlation peak at small relative angles. The width of the jet-like peak on η1−η2 increases by a factor 2.3 from peripheral to central collisions, suggesting strong coupling of semi-hard scattered partons to a longitudinally-expanding medium. The new methods of jet analysis introduced here provide access to scattered partons at low transverse momentum well below the kinematic range where perturbative quantum chromodynamics and standard fragmentation models are applicable

Identified hadron spectra at large transverse momentum in p+p and d+Au collisions at √sNN = 200 GeV

We present the transverse momentum (pT) spectra for identified charged pions, protons and anti-protons from p+p and d+Au collisions at . The spectra are measured around midrapidity (|y|/c with particle identification from the ionization energy loss and its relativistic rise in the time projection chamber and time-of-flight in STAR. The charged pion and proton + anti-proton spectra at high pT in p+p and d+Au collisions are in good agreement with a phenomenological model (EPOS) and with next-to-leading order perturbative quantum chromodynamic (NLO pQCD) calculations with a specific fragmentation scheme and factorization scale. We found that all proton, anti-proton and charged pion spectra in p+p collisions follow xT-scaling for the momentum range where particle production is dominated by hard processes (pT≳2 GeV/c). The nuclear modification factor around midrapidity is found to be greater than unity for charged pions and to be even larger for protons at 2T/c

Longitudinal Double-Spin Asymmetry and Cross Section for Inclusive Jet Production in Polarized Proton Collisions at √s = 200 GeV

We report a measurement of the longitudinal double-spin asymmetry ALL and the differential cross section for inclusive midrapidity jet production in polarized proton collisions at √s=200  GeV. The cross section data cover transverse momenta