Transfer matrix solution of the Wako-Sait\^o-Mu\~noz-Eaton model augmented by arbitrary short range interactions

The Wako-Sait{\^o}-Mu\~noz-Eaton (WSME) model, initially introduced in the theory of protein folding, has also been used in modeling the RNA folding and some epitaxial phenomena. The advantage of this model is that it admits exact solution in the general inhomogeneous case (Bruscolini and Pelizzola, 2002) which facilitates the study of realistic systems. However, a shortcoming of the model is that it accounts only for interactions within continuous stretches of native bonds or atomic chains while neglecting interstretch (interchain) interactions. But due to the biopolymer (atomic chain) flexibility, the monomers (atoms) separated by several non-native bonds along the sequence can become closely spaced. This produces their strong interaction. The inclusion of non-WSME interactions into the model makes the model more realistic and improves its performance. In this study we add arbitrary interactions of finite range and solve the new model by means of the transfer matrix technique. We can therefore exactly account for the interactions which in proteomics are classified as medium- and moderately long-range ones.Comment: 15 pages, 2 figure

Bose-Einstein correlations at LEP and Tevatron energies

Using the Bose-Einstein correlations (BEC) implemented in PYTHIA we investigated a possibility of the CDF experiment at the Tevatron to see the two-particle correlations in the final state of interactions. The approach based on quantum field theory at finite temperature was applied to the ALEPH data at LEP, and the BEC important parameters were retrieved.Comment: 5 pages, 4 figures, 1 table. Based on the talk gived at The 6th international workshop on very high multiplicity physics, JINR Dubna, 16-17 april 2005. In Table 1. the sign of error adde

An exactly solvable model for a beta-hairpin with random interactions

I investigate a disordered version of a simplified model of protein folding, with binary degrees of freedom, applied to an ideal beta-hairpin structure. Disorder is introduced by assuming that the contact energies are independent and identically distributed random variables. The equilibrium free-energy of the model is studied, performing the exact calculation of its quenched value and proving the self-averaging feature.Comment: 9 page

Constraints on the intrinsic charm content of the proton from recent ATLAS data

Constraints on the intrinsic charm probability \wccm = P_{{\mathrm{c}\bar \mathrm{c}} / \mathrm{p}} in the proton are obtained for the first time from LHC measurements. The ATLAS Collaboration data for the production of prompt photons, accompanied by a charm-quark jet in pp collisions at $\sqrt s = 8$ TeV, are used. The upper limit \mbox{\wccm < 1.93~\%} is obtained at the 68~\% confidence level. This constraint is primarily determined from the theoretical scale and systematical experimental uncertainties. Suggestions for reducing these uncertainties are discussed. The implications of intrinsic heavy quarks in the proton for future studies at the LHC are also discussed.Comment: 6 pages, 4 figure