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» Continuous optimization methods for structure alignments
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BMCBI
2004
177views more  BMCBI 2004»
14 years 11 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
BMCBI
2005
84views more  BMCBI 2005»
14 years 11 months ago
A method of precise mRNA/DNA homology-based gene structure prediction
Background: Accurate and automatic gene finding and structural prediction is a common problem in bioinformatics, and applications need to be capable of handling non-canonical spli...
Alexander G. Churbanov, Mark Pauley, Daniel Quest,...
BMCBI
2007
142views more  BMCBI 2007»
14 years 11 months ago
Predicting and improving the protein sequence alignment quality by support vector regression
Background: For successful protein structure prediction by comparative modeling, in addition to identifying a good template protein with known structure, obtaining an accurate seq...
Minho Lee, Chan-seok Jeong, Dongsup Kim
CSB
2004
IEEE
208views Bioinformatics» more  CSB 2004»
15 years 3 months ago
Pair Stochastic Tree Adjoining Grammars for Aligning and Predicting Pseudoknot RNA Structures
Motivation: Since the whole genome sequences for many species are currently available, computational predictions of RNA secondary structures and computational identifications of t...
Hiroshi Matsui, Kengo Sato, Yasubumi Sakakibara
CVPR
2009
IEEE
16 years 6 months ago
Global Optimization for Alignment of Generalized Shapes
In this paper, we introduce a novel algorithm to solve global shape registration problems. We use gray-scale “images” to represent source shapes, and propose a novel twocompo...
Hongsheng Li (Lehigh University), Tian Shen (Lehig...