RESUMO
We introduce MRFy, a tool for protein remote homology detection that captures beta-strand dependencies in the Markov random field. Over a set of 11 SCOP beta-structural superfamilies, MRFy shows a 14 percent improvement in mean Area Under the Curve for the motif recognition problem as compared to HMMER, 25 percent improvement as compared to RAPTOR, 14 percent improvement as compared to HHPred, and a 18 percent improvement as compared to CNFPred and RaptorX. MRFy was implemented in the Haskell functional programming language, and parallelizes well on multi-core systems. MRFy is available, as source code as well as an executable, from http://mrfy.cs.tufts.edu/.
Assuntos
Biologia Computacional/métodos , Proteínas/química , Alinhamento de Sequência/métodos , Análise de Sequência de Proteína/métodos , Homologia de Sequência de Aminoácidos , Algoritmos , Motivos de Aminoácidos , Cadeias de Markov , Modelos Estatísticos , Processos EstocásticosRESUMO
The history of atomic and molecular standards of time and frequency is traced from the earliest work on molecular and atomic beam resonance techniques to more recent developments that promise improved standards in the future. The various devices currently used as standards are discussed in detail from an historical prospective. The latter part of the article is devoted to a discussion of prospective developments which hold promise for major improvements in accuracy, stability and reproducibility.
