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» The evolutionary capacity of protein structures
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GECCO
2004
Springer
137views Optimization» more  GECCO 2004»
14 years 2 days ago
Evolving Better Multiple Sequence Alignments
Aligning multiple DNA or protein sequences is a fundamental step in the analyses of phylogeny, homology and molecular structure. Heuristic algorithms are applied because optimal mu...
Luke Sheneman, James A. Foster
ECAL
2007
Springer
14 years 26 days ago
Emergence of Genetic Coding: An Information-Theoretic Model
This paper1 introduces a simple model for evolutionary dynamics approaching the “coding threshold”, where the capacity to symbolically represent nucleic acid sequences emerges ...
Piraveenan Mahendra, Daniel Polani, Mikhail Prokop...
BMCBI
2004
158views more  BMCBI 2004»
13 years 6 months ago
Improvement of alignment accuracy utilizing sequentially conserved motifs
Background: Multiple sequence alignment algorithms are very important tools in molecular biology today. Accurate alignment of proteins is central to several areas such as homology...
Saikat Chakrabarti, Nitin Bhardwaj, Prem A. Anand,...
BMCBI
2006
130views more  BMCBI 2006»
13 years 6 months ago
An interactive visualization tool to explore the biophysical properties of amino acids and their contribution to substitution ma
Background: Quantitative descriptions of amino acid similarity, expressed as probabilistic models of evolutionary interchangeability, are central to many mainstream bioinformatic ...
Blazej Bulka, Marie desJardins, Stephen J. Freelan...
BMCBI
2005
92views more  BMCBI 2005»
13 years 6 months ago
Predicting functional sites with an automated algorithm suitable for heterogeneous datasets
Background: In a previous report (La et al., Proteins, 2005), we have demonstrated that the identification of phylogenetic motifs, protein sequence fragments conserving the overal...
David La, Dennis R. Livesay