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IJCAI
2007
13 years 11 months ago
Incremental Construction of Structured Hidden Markov Models
This paper presents an algorithm for inferring a Structured Hidden Markov Model (S-HMM) from a set of sequences. The S-HMMs are a sub-class of the Hierarchical Hidden Markov Model...
Ugo Galassi, Attilio Giordana, Lorenza Saitta
RIVF
2008
13 years 11 months ago
Speeding up subset seed algorithm for intensive protein sequence comparison
Abstract--Sequence similarity search is a common and repeated task in molecular biology. The rapid growth of genomic databases leads to the need of speeding up the treatment of thi...
Van Hoa Nguyen, Dominique Lavenier
ERSA
2004
130views Hardware» more  ERSA 2004»
13 years 11 months ago
Computing Lennard-Jones Potentials and Forces with Reconfigurable Hardware
Abstract-- Technological advances have made FPGAs an attractive platform for the acceleration of complex scientific applications. These applications demand high performance and hig...
Ronald Scrofano, Viktor K. Prasanna
AI
2005
Springer
13 years 9 months ago
Fast Protein Superfamily Classification Using Principal Component Null Space Analysis
Abstract. The protein family classification problem, which consists of determining the family memberships of given unknown protein sequences, is very important for a biologist for ...
Leon French, Alioune Ngom, Luis Rueda
JCC
2007
70views more  JCC 2007»
13 years 9 months ago
Self-organizing superimposition algorithm for conformational sampling
Abstract: A novel self-organizing algorithm for conformational sampling is introduced, in which precomputed conformations of rigid fragments are used as templates to enforce the de...
Fangqiang Zhu, Dimitris K. Agrafiotis