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» Alignment of Polarized Sets
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BMCBI
2008
146views more  BMCBI 2008»
15 years 4 months ago
Can molecular dynamics simulations help in discriminating correct from erroneous protein 3D models?
Background: Recent approaches for predicting the three-dimensional (3D) structure of proteins such as de novo or fold recognition methods mostly rely on simplified energy potentia...
Jean-François Taly, Antoine Marin, Jean-Fra...
161
Voted
BMCBI
2004
208views more  BMCBI 2004»
15 years 4 months ago
Using 3D Hidden Markov Models that explicitly represent spatial coordinates to model and compare protein structures
Background: Hidden Markov Models (HMMs) have proven very useful in computational biology for such applications as sequence pattern matching, gene-finding, and structure prediction...
Vadim Alexandrov, Mark Gerstein
BCB
2010
156views Bioinformatics» more  BCB 2010»
14 years 11 months ago
RepFrag: a graph based method for finding repeats and transposons from fragmented genomes
Growing sequencing and assembly efforts have been met by the advances in high throughput machines. However, the presence of massive amounts of repeats and transposons complicates ...
Nirmalya Bandyopadhyay, A. Mark Settles, Tamer Kah...
IPMI
2007
Springer
16 years 5 months ago
Brain Image Registration Using Cortically Constrained Harmonic Mappings
Volumetric registration of brains is required for inter-subject studies of functional and anatomical data. Intensity-driven registration typically results in some degree of misalig...
Anand A. Joshi, David W. Shattuck, Paul M. Thompso...
165
Voted
LION
2009
Springer
114views Optimization» more  LION 2009»
15 years 11 months ago
Substitution Matrices and Mutual Information Approaches to Modeling Evolution
Abstract. Substitution matrices are at the heart of Bioinformatics: sequence alignment, database search, phylogenetic inference, protein family classication are based on Blosum, P...
Stephan Kitchovitch, Yuedong Song, Richard C. van ...