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» The optimal sequence compression
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IJNS
2007
153views more  IJNS 2007»
14 years 9 months ago
Evolutionary Optimization of Sequence Kernels for Detection of bacterial gene Starts
Oligo kernels for biological sequence classification have a high discriminative power. A new parameterization for the K-mer oligo kernel is presented, where all oligomers of lengt...
Britta Mersch, Tobias Glasmachers, Peter Meinicke,...
BMCBI
2005
134views more  BMCBI 2005»
14 years 9 months ago
Ancestral sequence alignment under optimal conditions
Background: Multiple genome alignment is an important problem in bioinformatics. An important subproblem used by many multiple alignment approaches is that of aligning two multipl...
Alexander K. Hudek, Daniel G. Brown 0001
VLDB
2008
ACM
103views Database» more  VLDB 2008»
15 years 10 months ago
The optimal sequenced route query
Several variations of nearest neighbor (NN) query have been investigated by the database community. However, realworld applications often result in the formulation of new variatio...
Mehdi Sharifzadeh, Mohammad R. Kolahdouzan, Cyrus ...
LCTRTS
2010
Springer
14 years 7 months ago
Improving both the performance benefits and speed of optimization phase sequence searches
The issues of compiler optimization phase ordering and selection present important challenges to compiler developers in several domains, and in particular to the speed, code size,...
Prasad A. Kulkarni, Michael R. Jantz, David B. Wha...
BMCBI
2002
108views more  BMCBI 2002»
14 years 9 months ago
A memory-efficient dynamic programming algorithm for optimal alignment of a sequence to an RNA secondary structure
Background: Covariance models (CMs) are probabilistic models of RNA secondary structure, analogous to profile hidden Markov models of linear sequence. The dynamic programming algo...
Sean R. Eddy