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BMCBI
2007
142views more  BMCBI 2007»
13 years 10 months ago
Improving model construction of profile HMMs for remote homology detection through structural alignment
Background: Remote homology detection is a challenging problem in Bioinformatics. Arguably, profile Hidden Markov Models (pHMMs) are one of the most successful approaches in addre...
Juliana S. Bernardes, Alberto M. R. Dávila,...
BIBM
2007
IEEE
132views Bioinformatics» more  BIBM 2007»
14 years 4 months ago
A Divide-and-Conquer Implementation of Three Sequence Alignment and Ancestor Inference
In this paper, we present an algorithm to simultaneously align three biological sequences with affine gap model and infer their common ancestral sequence. Our algorithm can be fu...
Feng Yue, Jijun Tang
BMCBI
2010
143views more  BMCBI 2010»
13 years 7 months ago
A genome alignment algorithm based on compression
Background: Traditional genome alignment methods consider sequence alignment as a variation of the string edit distance problem, and perform alignment by matching characters of th...
Minh Duc Cao, Trevor I. Dix, Lloyd Allison
BMCBI
2010
138views more  BMCBI 2010»
13 years 10 months ago
Sigma-2: Multiple sequence alignment of non-coding DNA via an evolutionary model
Background: While most multiple sequence alignment programs expect that all or most of their input is known to be homologous, and penalise insertions and deletions, this is not a ...
Gayathri Jayaraman, Rahul Siddharthan
ER
2008
Springer
91views Database» more  ER 2008»
14 years 4 days ago
Model Driven Specification of Ontology Translations
Abstract. The alignment of different ontologies requires the specification, representation and execution of translation rules. The rules need to integrate translations at the lexic...
Fernando Silva Parreiras, Steffen Staab, Simon Sch...