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» A SAT-Based Approach to Multiple Sequence Alignment
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ISMB
1996
15 years 1 months ago
Parameterization Studies for the SAM and HMMER Methods of Hidden Markov Model Generation
Multiple sequence alignment of distantly related viral proteins remains a challenge to all currently available alignment methods. The hidden Markovmodel approach offers a new,flex...
Marcella A. McClure, Chris Smith, Pete Elton
90
Voted
CPM
2004
Springer
156views Combinatorics» more  CPM 2004»
15 years 5 months ago
A Computational Model for RNA Multiple Structural Alignment.
Abstract. This paper addresses the problem of aligning multiple sequences of non-coding RNA genes. We approach this problem with the biologically motivated paradigm that scoring of...
Eugene Davydov, Serafim Batzoglou
BIBE
2006
IEEE
119views Bioinformatics» more  BIBE 2006»
15 years 6 months ago
Large Grain Size Stochastic Optimization Alignment
DNA sequence alignment is a critical step in identifying homology between organisms. The most widely used alignment program, ClustalW, is known to suffer from the local minima pro...
Perry Ridge, Hyrum Carroll, Dan Sneddon, Mark J. C...
BMCBI
2004
158views more  BMCBI 2004»
15 years 5 days 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,...
DEXA
2007
Springer
150views Database» more  DEXA 2007»
15 years 6 months ago
Sequence Alignment as a Database Technology Challenge
Abstract. Sequence alignment is an important task for molecular biologists. Because alignment basically deals with approximate string matching on large biological sequence collecti...
Hans Philippi