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125
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WABI
2007
Springer
15 years 9 months ago
Topology Independent Protein Structural Alignment
Abstract. Protein structural alignment is an indispensable tool used for many different studies in bioinformatics. Most structural alignment algorithms assume that the structural ...
Joe Dundas, T. Andrew Binkowski, Bhaskar DasGupta,...
118
Voted
BMCBI
2008
103views more  BMCBI 2008»
15 years 2 months ago
TOPS++FATCAT: Fast flexible structural alignment using constraints derived from TOPS+ Strings Model
Background: Protein structure analysis and comparison are major challenges in structural bioinformatics. Despite the existence of many tools and algorithms, very few of them have ...
Mallika Veeramalai, Yuzhen Ye, Adam Godzik
127
Voted
CEC
2008
IEEE
15 years 4 months ago
Directed trees: A powerful representation for sorting and ordering problems
We present a simple framework for dealing with search spaces consisting of permutations. To demonstrate its usefulness, we build upon it a simple (1 + 1)-evolutionary algorithm fo...
Benjamin Doerr, Edda Happ
166
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CP
2003
Springer
15 years 8 months ago
A SAT-Based Approach to Multiple Sequence Alignment
Multiple sequence alignment is a central problem in Bioinformatics. A known integer programming approach is to apply branch-and-cut to exponentially large graph-theoretic models. T...
Steven David Prestwich, Desmond G. Higgins, Orla O...
CVPR
2010
IEEE
15 years 11 months ago
Globally Optimal Pixel Labeling Algorithms for Tree Metrics
We consider pixel labeling problems where the label set forms a tree, and where the observations are also labels. Such problems arise in feature-space analysis with a very large...
Pedro Felzenszwalb, Gyula Pap, Eva Tardos, Ramin Z...