126 citations · 612 across the 28 of their papers we have counts for
5 papers · 1 filter
The maximum penalty criterion for ridge regression: application to the calibration of the force constant in elastic network models
Ugo Bastolla, Yves Dehouck
Multivariate regression is a widespread computational technique that may give meaningless results if the explanatory variables are too numerous or highly collinear. Tikhonov regula…
Looking at structure, stability, and evolution of proteins through the principal eigenvector of contact matrices and hydrophobicity profiles
Ugo Bastolla, Markus Porto, H. Eduardo Roman +1
We review and further develop an analytical model that describes how thermodynamic constraints on the stability of the native state influence protein evolution in a site-specific m…
Prediction of site-specific amino acid distributions and limits of divergent evolutionary changes in protein sequences
Markus Porto, H. Eduardo Roman, Michele Vendruscolo +1
We derive an analytic expression for site-specific stationary distributions of amino acids from the Structurally Constrained Neutral (SCN) model of protein evolution with conservat…
The principal eigenvector of contact matrices and hydrophobicity profiles in proteins
Ugo Bastolla, Markus Porto, H. Eduardo Roman +1
With the aim to study the relationship between protein sequences and their native structures, we adopt vectorial representations for both sequence and structure. The structural rep…
Reconstruction of protein structures from a vectorial representation
Markus Porto, Ugo Bastolla, H. Eduardo Roman +1
We show that the contact map of the native structure of globular proteins can be reconstructed starting from the sole knowledge of the contact map's principal eigenvector, and pres…