Network Entropy measures applied to different systemic perturbations of cell basal state

NOTE: includes supplementary materialNOTE: includes supplementary materialNOTE: includes supplementary materialWe characterize different cell states, related to cancer and ageing phenotypes, by a measure of entropy of network ensembles, integrating gene expression values and protein interaction networks. The entropy measure estimates the parameter space available to the network ensemble, that can be interpreted as the level of plasticity of the system for high entropy values (the ability to change its internal parameters, e.g. in response to environmental stimuli), or as a fine tuning of the parameters (that restricts the range of possible parameter values) in the opposite case. This approach can be applied at different scales, from whole cell to single biological functions, by defining appropriate subnetworks based on a priori biological knowledge, thus allowing a deeper understanding of the cell processes involved. In our analysis we used specific network features (degree sequence, subnetwork structure and distance between gene profiles) to obtain informations at different biological scales, providing a novel point of view for the integration of experimental transcriptomic data and a priori biological knowledge, but the entropy measure can also highlight other aspects of the biological systems studied depending on the constraints introduced in the model (e.g. community structures)

A Crucial Test for Color-Octet Production Mechanism in Z^0 Decays

The direct production rates of $D$-wave charmonia in the decays of $Z^0$ is evaluated. The color-octet production processes $Z^0\rightarrow ^3D_J(c\bar c) q\bar q$ are shown to have distinctively large branching ratios, the same order of magnitude as that of $J/\psi$ prodution, as compared with other $D$-wave charmonium production mechanisms. This may suggest a crucial channel to test the color-octet mechanism as well as to observe the $D$-wave charmonium states in $Z^0$ decays. In addition, a signal for the $^3D_J$ charmonium as strong as $J/\psi$ or $\psi^\prime$ with large transverse momentum at the Tevatron should also be observed.Comment: 14 pages in LaTex (3 figures in PS-file

Gluon fragmentation to ^3D_J quarkonia

We present a calculation of the leading order QCD fragmentation functions for gluons to split into spin-triplet D-wave quarkonia. We apply them to evaluate the gluon fragmentation contributions to inclusive ^3D_J quarkonium production at large transverse momentum processes like the Tevatron and find that the D-wave quarkonia, especially the charmonium 2^{--} state, could be observed through color-octet mechanism with present luminosity. Since there are distinctively large gaps between the contributions of two different (i.e, color-singlet and color-octet) quarkonium production mechanisms, our results may stand as a unique test to NRQCD color-octet quarkonium production mechanism.Comment: 15 pages in LaTex (2 figures in PS-file

Precision measurements of the total and partial widths of the psi(2S) charmonium meson with a new complementary-scan technique in antiproton-proton annihilations

We present new precision measurements of the psi(2S) total and partial widths from excitation curves obtained in antiproton-proton annihilations by Fermilab experiment E835 at the Antiproton Accumulator in the year 2000. A new technique of complementary scans was developed to study narrow resonances with stochastically cooled antiproton beams. The technique relies on precise revolution-frequency and orbit-length measurements, while making the analysis of the excitation curve almost independent of machine lattice parameters. We study the psi(2S) meson through the processes pbar p -> e+ e- and pbar p -> J/psi + X -> e+ e- + X. We measure the width to be Gamma = 290 +- 25(sta) +- 4(sys) keV and the combination of partial widths Gamma_e+e- * Gamma_pbarp / Gamma = 579 +- 38(sta) +- 36(sys) meV, which represent the most precise measurements to date.Comment: 17 pages, 3 figures, 3 tables. Final manuscript accepted for publication in Phys. Lett. B. Parts of the text slightly expanded or rearranged; results are unchange

Measurement of the branching ratio of the decay Ξ0→Σ+μ−νˉμ\Xi^{0}\rightarrow \Sigma^{+} \mu^{-} \bar{\nu}_{\mu}

From the 2002 data taking with a neutral kaon beam extracted from the CERN-SPS, the NA48/1 experiment observed 97 $\Xi^{0}\rightarrow \Sigma^{+} \mu^{-} \bar{\nu}_{\mu}$ candidates with a background contamination of $30.8 \pm 4.2$ events. From this sample, the BR($\Xi^{0}\rightarrow \Sigma^{+} \mu^{-} \bar{\nu}_{\mu}$) is measured to be $(2.17 \pm 0.32_{\mathrm{stat}}\pm 0.17_{\mathrm{syst}})\times10^{-6}$

The physics of spreading processes in multilayer networks

The study of networks plays a crucial role in investigating the structure, dynamics, and function of a wide variety of complex systems in myriad disciplines. Despite the success of traditional network analysis, standard networks provide a limited representation of complex systems, which often include different types of relationships (i.e., "multiplexity") among their constituent components and/or multiple interacting subsystems. Such structural complexity has a significant effect on both dynamics and function. Throwing away or aggregating available structural information can generate misleading results and be a major obstacle towards attempts to understand complex systems. The recent "multilayer" approach for modeling networked systems explicitly allows the incorporation of multiplexity and other features of realistic systems. On one hand, it allows one to couple different structural relationships by encoding them in a convenient mathematical object. On the other hand, it also allows one to couple different dynamical processes on top of such interconnected structures. The resulting framework plays a crucial role in helping achieve a thorough, accurate understanding of complex systems. The study of multilayer networks has also revealed new physical phenomena that remain hidden when using ordinary graphs, the traditional network representation. Here we survey progress towards attaining a deeper understanding of spreading processes on multilayer networks, and we highlight some of the physical phenomena related to spreading processes that emerge from multilayer structure.Comment: 25 pages, 4 figure

Interference Study of the chi_c0 (1^3P_0) in the Reaction Proton-Antiproton -> pi^0 pi^0

Fermilab experiment E835 has observed proton-antiproton annihilation production of the charmonium state chi_c0 and its subsequent decay into pi^0 pi^0. Although the resonant amplitude is an order of magnitude smaller than that of the non-resonant continuum production of pi^0 pi^0, an enhanced interference signal is evident. A partial wave expansion is used to extract physics parameters. The amplitudes J=0 and 2, of comparable strength, dominate the expansion. Both are accessed by L=1 in the entrance proton-antiproton channel. The product of the input and output branching fractions is determined to be B(pbar p -> chi_c0) x B(chi_c0 -> pi^0 pi^0)= (5.09 +- 0.81 +- 0.25) x 10^-7.Comment: 4 pages, 4 figures, Accepted by PRL (July 2003