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» A Part-of-Speech-Based Alignment Algorithm
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ISMB
1997
15 years 3 months ago
Automated Alignment of RNA Sequences to Pseudoknotted Structures
Seq7 is a newprogramfor generating multiple structure-based alignments of RNAsequences. Byusing a variant of Dijkstra’s algorithm to find the shortest path through a specially c...
Jack E. Tabaska, Gary D. Stormo
JMLR
2012
13 years 4 months ago
Algorithms for Learning Kernels Based on Centered Alignment
This paper presents new and effective algorithms for learning kernels. In particular, as shown by our empirical results, these algorithms consistently outperform the so-called uni...
Corinna Cortes, Mehryar Mohri, Afshin Rostamizadeh
WABI
2005
Springer
117views Bioinformatics» more  WABI 2005»
15 years 7 months ago
Faster Algorithms for Optimal Multiple Sequence Alignment Based on Pairwise Comparisons
Multiple Sequence Alignment (MSA) is one of the most fundamental problems in computational molecular biology. The running time of the best known scheme for finding an optimal ali...
Pankaj K. Agarwal, Yonatan Bilu, Rachel Kolodny
IJCNLP
2005
Springer
15 years 7 months ago
Analysis of an Iterative Algorithm for Term-Based Ontology Alignment
Abstract. This paper analyzes the results of automatic concept alignment between two ontologies. We use an iterative algorithm to perform concept alignment. The algorithm uses the ...
Shisanu Tongchim, Canasai Kruengkrai, Virach Sornl...
BMCBI
2010
189views more  BMCBI 2010»
15 years 2 months ago
High quality protein sequence alignment by combining structural profile prediction and profile alignment using SABERTOOTH
Background: Protein alignments are an essential tool for many bioinformatics analyses. While sequence alignments are accurate for proteins of high sequence similarity, they become...
Florian Teichert, Jonas Minning, Ugo Bastolla, Mar...