We explore the ability of a simple simulated annealing procedure to assemble native-like structures from fragments of unrelated protein structures with similar local sequences using Bayesian scoring functions. Environment and residue pair specific contributions to the scoring functions appear

full Bayesian model that can handle unknown site abund-ance, unknown motif width and two-block motifs with variable-length gaps. An algorithm called BioOptimizer is proposed to optimize this scoring function so as to reduce noise in the motif signal found by any motif-finding program. The accur

this paper, we report a new, improved FEATURE system and investigate the FEATURE's ability to recognize sites that are geometrically complex and asymmetric, such as ATP-binding sites, redoxin active sites, and disulfide bond-forming sites. We also show that, if a biologist does not have enough known examples of a site to build a statistical profile, she can use aprioriknowledge to construct an artificial profile for the site and FEATURE can use the artificially constructed profile to search for the site in new structures

ARCH (GARCH) models [see Bollerslev, Chou, and Kroner (1992) for a survey of ARCH modeling], both the mean and log-volatility equations have separate error terms. The ease of evaluating the ARCH likelihood function and the ability of the ARCH specification to accommodate the timevarying volatility

We describe scoring metrics for learning Bayesian networks from a combination of user knowledge and statistical data. We identify two important properties of metrics, which we call event equivalence and parameter modularity. These properties have been mostly ignored, but when combined, greatly

vector machine’ (RVM), a model of identical functional form to the popular and state-of-the-art `support vector machine ’ (SVM). We demonstrate that by exploiting a probabilistic Bayesian learning framework, we can derive accurate prediction models which typically utilise dramatically fewer basis

Abstract-We make an analogy between images and statistical mechanics systems. Pixel gray levels and the presence and orientation of edges are viewed as states of atoms or molecules in a lattice-like physical system. The assignment of an energy function in the physical system determines its Gibbs

The paper develops a new theory for the analysis of games with incomplete information where the players are uncertain about some important parameters of the game situation, such as the payoff functions, the strategies available to various players, the information other players have about the game

, performance on standardized tests increases by four percentile points the �rst year students attend small classes; (2) the test score advantage of students in small classes expands by about one percentile point per year in subsequent years; (3) teacher aides and measured teacher characteristics have little

but effective GMMs for likelihood functions, a universal background model (UBM) for alternative speaker representation, and a form of Bayesian adaptation to derive speaker models from the UBM. The development and use of a handset detector and score normalization to greatly improve verification performance