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IJDMB
2008
128views more  IJDMB 2008»
15 years 3 months ago
Protein homology detection with biologically inspired features and interpretable statistical models
: Computational classification of proteins using methods such as string kernels and Fisher-SVM has demonstrated great success. However, the resulting models do not offer an immedia...
Pai-Hsi Huang, Vladimir Pavlovic
IPPS
2007
IEEE
15 years 10 months ago
Reconfigurable Architecture for Biological Sequence Comparison in Reduced Memory Space
DNA sequence alignment is a very important problem in bioinformatics. The algorithm proposed by Smith-Waterman (SW) is an exact method that obtains optimal local alignments in qua...
Azzedine Boukerche, Jan Mendonca Correa, Alba Cris...
112
Voted
SIGCSE
2004
ACM
112views Education» more  SIGCSE 2004»
15 years 9 months ago
Design patterns for marine biology simulation
We specify and implement a GUI application that simulates marine biological systems by making extensive use of objectoriented design patterns. The key design patterns are model-vi...
Dung Zung Nguyen, Mathias Ricken, Stephen B. Wong
150
Voted
CIBCB
2007
IEEE
15 years 10 months ago
Modeling protein-DNA binding time in Stochastic Discrete Event Simulation of Biological Processes
Abstract— This paper presents a parametric model to estimate the DNA-protein binding time using the DNA and protein structures and details of the binding site. To understand the ...
Preetam Ghosh, Samik Ghosh, Kalyan Basu, Sajal K. ...
GECCO
2008
Springer
155views Optimization» more  GECCO 2008»
15 years 5 months ago
Modularity and symmetry in computational embryogeny
Modularity and symmetry are two properties observed in almost every engineering and biological structure. The origin of these properties in nature is still unknown. Yet, as engine...
Or Yogev, Andrew A. Shapiro, Erik K. Antonsson