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» A simple and fast heuristic for protein structure comparison
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METMBS
2004
162views Mathematics» more  METMBS 2004»
13 years 11 months ago
A Comparison of DNA Fragment Assembly Algorithms
As more research centers embark on sequencing new genomes, the problem of DNA fragment assembly for shotgun sequencing is growing in importance and complexity. Accurate and fast a...
Lishan Li, Sami Khuri
BIOINFORMATICS
2000
149views more  BIOINFORMATICS 2000»
13 years 9 months ago
MaxSub: an automated measure for the assessment of protein structure prediction quality
Motivation: Evaluating the accuracy of predicted models is critical for assessing structure prediction methods. Because this problem is not trivial, a large number of different as...
Naomi Siew, Arne Elofsson, Leszek Rychlewski, Dani...
JCC
2006
110views more  JCC 2006»
13 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
GCB
2006
Springer
99views Biometrics» more  GCB 2006»
14 years 1 months ago
Shape Distributions and Protein Similarity
: In this paper we describe a similarity model that provides the objective basis for clustering proteins of similar structure. More specifically, we consider the following variant ...
Stefan Canzar, Jan Remy
BMCBI
2005
132views more  BMCBI 2005»
13 years 9 months ago
Kalign - an accurate and fast multiple sequence alignment algorithm
Background: The alignment of multiple protein sequences is a fundamental step in the analysis of biological data. It has traditionally been applied to analyzing protein families f...
Timo Lassmann, Erik L. L. Sonnhammer