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» A Part-of-Speech-Based Alignment Algorithm
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BMCBI
2005
198views more  BMCBI 2005»
15 years 4 months ago
Clustering protein sequences with a novel metric transformed from sequence similarity scores and sequence alignments with neural
Background: The sequencing of the human genome has enabled us to access a comprehensive list of genes (both experimental and predicted) for further analysis. While a majority of t...
Qicheng Ma, Gung-Wei Chirn, Richard Cai, Joseph D....
OTM
2009
Springer
15 years 10 months ago
Merging Sets of Taxonomically Organized Data Using Concept Mappings under Uncertainty
Abstract. We present a method for using aligned ontologies to merge taxonomically organized data sets that have apparently compatible schemas, but potentially different semantics f...
David Thau, Shawn Bowers, Bertram Ludäscher
JCB
2007
94views more  JCB 2007»
15 years 4 months ago
Locality and Gaps in RNA Comparison
Locality is an important and well-studied notion in comparative analysis of biological sequences. Similarly, taking into account affine gap penalties when calculating biological ...
Rolf Backofen, Shihyen Chen, Danny Hermelin, Gad M...
BMCBI
2007
153views more  BMCBI 2007»
15 years 4 months ago
Can Clustal-style progressive pairwise alignment of multiple sequences be used in RNA secondary structure prediction?
Background: In ribonucleic acid (RNA) molecules whose function depends on their final, folded three-dimensional shape (such as those in ribosomes or spliceosome complexes), the se...
Amelia B. Bellamy-Royds, Marcel Turcotte
BMCBI
2008
116views more  BMCBI 2008»
15 years 4 months ago
Clustering exact matches of pairwise sequence alignments by weighted linear regression
Background: At intermediate stages of genome assembly projects, when a number of contigs have been generated and their validity needs to be verified, it is desirable to align thes...
Alvaro J. González, Li Liao