Generalized Pattern Search Algorithm for Peptide Structure Prediction

Generalized pattern search algorithm for Peptide structure prediction.

Finding the near-native structure of a protein is one of the most important open problems in structural biology and biological physics. The problem becomes dramatically more difficult when a given protein has no regular secondary structure or it does not show a fold similar to structures already known. This situation occurs frequently when we need to predict the tertiary structure of small mole...

Generalized Pattern Search and Mesh Adaptive Direct Search Algorithms for Protein Structure Prediction

Proteins are the most interesting molecular entities of a living organism and understanding their function is a an important task to treat diseases and synthesize new drugs. It is largely known that the function of a protein is strictly related to its spatial conformation: to tackle this problem, we have proposed a new approach based on the class of pattern search algorithms that are largely us...

A Generalized Threats Search Algorithm

Improved Cuckoo Search Algorithm for Global Optimization

The cuckoo search algorithm is a recently developedmeta-heuristic optimization algorithm, which is suitable forsolving optimization problems. To enhance the accuracy andconvergence rate of this algorithm, an improved cuckoo searchalgorithm is proposed in this paper. Normally, the parametersof the cuckoo search are kept constant. This may lead todecreasing the efficiency of the algorithm. To cop...

Convergence Results for Generalized Pattern Search Algorithms are Tight

The convergence theory of generalized pattern search algorithms for unconstrained optimization guarantees under mild conditions that the method produces a limit point satisfying first order optimality conditions related to the local differentiability of the objective function. By exploiting the flexibility allowed by the algorithm, we derive six small dimensional examples showing that the conve...