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WABI
2010
Springer
167views Bioinformatics» more  WABI 2010»
13 years 3 months ago
Quantifying the Strength of Natural Selection of a Motif Sequence
Quantification of selective pressures on regulatory sequences is a central question in studying the evolution of gene regulatory networks. Previous methods focus primarily on sing...
Chen-Hsiang Yeang
BMCBI
2004
177views more  BMCBI 2004»
13 years 4 months ago
Gapped alignment of protein sequence motifs through Monte Carlo optimization of a hidden Markov model
Background: Certain protein families are highly conserved across distantly related organisms and belong to large and functionally diverse superfamilies. The patterns of conservati...
Andrew F. Neuwald, Jun S. Liu
NAR
2008
119views more  NAR 2008»
13 years 4 months ago
MALISAM: a database of structurally analogous motifs in proteins
MALISAM (manual alignments for structurally analogous motifs) represents the first database containing pairs of structural analogs and their alignments. To find reliable analogs, ...
Hua Cheng, Bong-Hyun Kim, Nick V. Grishin
IPPS
2002
IEEE
13 years 9 months ago
Monte Carlo Simulation of HIV-1 Evolution in Response to Selection by Antibodies
The persistence of human immunodeficiency virus type 1 (HIV-1) infection may be in part attributed to its ability to evolve to evade neutralizing antibody (NAb) surveillance. We h...
Jack da Silva, Austin L. Hughes
BMCBI
2008
114views more  BMCBI 2008»
13 years 4 months ago
WSPMaker: a web tool for calculating selection pressure in proteins and domains using window-sliding
Background: In the study of adaptive evolution, it is important to detect the protein coding sites where natural selection is acting. In general, the ratio of the rate of non-syno...
Yong Seok Lee, Tae-Hyung Kim, Tae-Wook Kang, Won-H...