Since its first release in 2008,Norine remains the unique resource completely devoted to nonribosomal peptides(NRPs).They are very attractive microbial secondary metabolites,displaying a remarkable diversity of struct...Since its first release in 2008,Norine remains the unique resource completely devoted to nonribosomal peptides(NRPs).They are very attractive microbial secondary metabolites,displaying a remarkable diversity of structure and functions.Norine(http://bioinfo.lifl.fr/NRP)includes a database now containing more than 1160 annotated peptides and user-friendly interfaces enabling the querying of the database,through the annotations or the structure of the peptides.Dedicated tools are associated for structural comparison of the compounds and prediction of their biological activities.In this paper,we start by describing the knowledgebase and the dedicated tools.We then present some user cases to show how useful Norine is for the discovery of novel nonribosomal peptides.展开更多
We report results of a comprehensive global х~2 analysis of nuclear collision data from RHIC(0.2 ATeV),LHC1(2.76 ATeV), and recent LHC2(5.02 ATeV) energies using the updated CUJET framework. The framework consistentl...We report results of a comprehensive global х~2 analysis of nuclear collision data from RHIC(0.2 ATeV),LHC1(2.76 ATeV), and recent LHC2(5.02 ATeV) energies using the updated CUJET framework. The framework consistently combines viscous hydrodynamic fields predicted by VISHNU2+1(validated with soft p_T﹤2 GeV bulk observables) and the DGLV theory of jet elastic and inelastic energy loss generalized to QGP fluids with an sQGMP color structure, including effective semi-QGP color electric quark and gluon as well as emergent color magnetic monopole degrees of freedom constrained by lattice QCD data. We vary the two control parameters of the model(the maximum value of the running QCD coupling, c, and the ratio cm of color magnetic to electric screening scales) and calculate the global х~2(α_c,c_m) compared with available jet fragment observables( R_(AA),v_2). A global х~2 minimum is found with α_c≈0.9±0.1 and c_m≈0.25±0.03. Using CIBJET, the event-by-event(ebe) generalization of the CUJET framework, we show that ebe fluctuations in the initial conditions do not significantly alter our conclusions(except for v_3). An important theoretical advantage of the CUJET and CIBJET frameworks is not only its global х~2 consistency with jet fragment observables at RHIC and LHC and with non-perturbative lattice QCD data, but also its internal consistency of the constrained jet transport coefficient, ■(E,T)/T^3, with the near-perfect fluid viscosity to entropy ratio(η/s～T^3/■～0.1-0.2) property of QCD fluids near Tc needed to account for the low p_T﹤2 GeV flow observables. Predictions for future tests at LHC with 5.44 ATeV Xe + Xe and 5.02 ATeV Pb + Pb are also presented.展开更多
文摘Since its first release in 2008,Norine remains the unique resource completely devoted to nonribosomal peptides(NRPs).They are very attractive microbial secondary metabolites,displaying a remarkable diversity of structure and functions.Norine(http://bioinfo.lifl.fr/NRP)includes a database now containing more than 1160 annotated peptides and user-friendly interfaces enabling the querying of the database,through the annotations or the structure of the peptides.Dedicated tools are associated for structural comparison of the compounds and prediction of their biological activities.In this paper,we start by describing the knowledgebase and the dedicated tools.We then present some user cases to show how useful Norine is for the discovery of novel nonribosomal peptides.
基金Supported by the National Science Foundation(PHY-1352368)IOPP of CCNU Wuhan China,the computations in this study were performed on IU's Big Red Ⅱ clusters,supported in part by the Lilly Endowment,Inc.+1 种基金support for the Indiana University Pervasive Technology Institute,and in part by the Indiana METACyt InitiativeThe Indiana METACyt Initiative at IU was also supported in part by the Lilly Endowment,Inc.
文摘We report results of a comprehensive global х~2 analysis of nuclear collision data from RHIC(0.2 ATeV),LHC1(2.76 ATeV), and recent LHC2(5.02 ATeV) energies using the updated CUJET framework. The framework consistently combines viscous hydrodynamic fields predicted by VISHNU2+1(validated with soft p_T﹤2 GeV bulk observables) and the DGLV theory of jet elastic and inelastic energy loss generalized to QGP fluids with an sQGMP color structure, including effective semi-QGP color electric quark and gluon as well as emergent color magnetic monopole degrees of freedom constrained by lattice QCD data. We vary the two control parameters of the model(the maximum value of the running QCD coupling, c, and the ratio cm of color magnetic to electric screening scales) and calculate the global х~2(α_c,c_m) compared with available jet fragment observables( R_(AA),v_2). A global х~2 minimum is found with α_c≈0.9±0.1 and c_m≈0.25±0.03. Using CIBJET, the event-by-event(ebe) generalization of the CUJET framework, we show that ebe fluctuations in the initial conditions do not significantly alter our conclusions(except for v_3). An important theoretical advantage of the CUJET and CIBJET frameworks is not only its global х~2 consistency with jet fragment observables at RHIC and LHC and with non-perturbative lattice QCD data, but also its internal consistency of the constrained jet transport coefficient, ■(E,T)/T^3, with the near-perfect fluid viscosity to entropy ratio(η/s～T^3/■～0.1-0.2) property of QCD fluids near Tc needed to account for the low p_T﹤2 GeV flow observables. Predictions for future tests at LHC with 5.44 ATeV Xe + Xe and 5.02 ATeV Pb + Pb are also presented.
