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» Functional site prediction selects correct protein models
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RECOMB
2007
Springer
15 years 10 months ago
Minimizing and Learning Energy Functions for Side-Chain Prediction
Abstract. Side-chain prediction is an important subproblem of the general protein folding problem. Despite much progress in side-chain prediction, performance is far from satisfact...
Chen Yanover, Ora Schueler-Furman, Yair Weiss
BMCBI
2010
176views more  BMCBI 2010»
14 years 9 months ago
TargetSpy: a supervised machine learning approach for microRNA target prediction
Background: Virtually all currently available microRNA target site prediction algorithms require the presence of a (conserved) seed match to the 5' end of the microRNA. Recen...
Martin Sturm, Michael Hackenberg, David Langenberg...
BMCBI
2007
147views more  BMCBI 2007»
14 years 9 months ago
Hon-yaku: a biology-driven Bayesian methodology for identifying translation initiation sites in prokaryotes
Background: Computational prediction methods are currently used to identify genes in prokaryote genomes. However, identification of the correct translation initiation sites remain...
Yuko Makita, Michiel J. L. de Hoon, Antoine Danchi...
BMCBI
2006
116views more  BMCBI 2006»
14 years 9 months ago
Optimized mixed Markov models for motif identification
Background: Identifying functional elements, such as transcriptional factor binding sites, is a fundamental step in reconstructing gene regulatory networks and remains a challengi...
Weichun Huang, David M. Umbach, Uwe Ohler, Leping ...
BMCBI
2008
146views more  BMCBI 2008»
14 years 9 months ago
Can molecular dynamics simulations help in discriminating correct from erroneous protein 3D models?
Background: Recent approaches for predicting the three-dimensional (3D) structure of proteins such as de novo or fold recognition methods mostly rely on simplified energy potentia...
Jean-François Taly, Antoine Marin, Jean-Fra...