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» Computing with Evolving Proteins
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BMCBI
2007
127views more  BMCBI 2007»
14 years 9 months ago
CORRIE: enzyme sequence annotation with confidence estimates
Using a previously developed automated method for enzyme annotation, we report the reannotation of the ENZYME database and the analysis of local error rates per class. In control ...
Benjamin Audit, Emmanuel D. Levy, Walter R. Gilks,...
JCC
2006
110views more  JCC 2006»
14 years 9 months ago
Using internal and collective variables in Monte Carlo simulations of nucleic acid structures: Chain breakage/closure algorithm
: This article describes a method for solving the geometric closure problem for simplified models of nucleic acid structures by using the constant bond lengths approximation. The r...
Heinz Sklenar, Daniel Wüstner, Remo Rohs
NAR
2006
177views more  NAR 2006»
14 years 9 months ago
PUMA2 - grid-based high-throughput analysis of genomes and metabolic pathways
The PUMA2 system (available at http://compbio.mcs. 10 anl.gov/puma2) is an interactive, integrated bioinformatics environment for high-throughput genetic sequence analysis and met...
Natalia Maltsev, Elizabeth M. Glass, Dinanath Sula...
PR
2008
141views more  PR 2008»
14 years 9 months ago
Robust and efficient multiclass SVM models for phrase pattern recognition
Phrase pattern recognition (phrase chunking) refers to automatic approaches for identifying predefined phrase structures in a stream of text. Support vector machines (SVMs)-based ...
Yu-Chieh Wu, Yue-Shi Lee, Jie-Chi Yang
BMCBI
2005
130views more  BMCBI 2005»
14 years 9 months ago
Some statistical properties of regulatory DNA sequences, and their use in predicting regulatory regions in the Drosophila genome
Background: This paper addresses the problem of recognising DNA cis-regulatory modules which are located far from genes. Experimental procedures for this are slow and costly, and ...
Irina I. Abnizova, Rene te Boekhorst, Klaudia Walt...