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ICML
2006
IEEE
14 years 6 months ago
Nonstationary kernel combination
The power and popularity of kernel methods stem in part from their ability to handle diverse forms of structured inputs, including vectors, graphs and strings. Recently, several m...
Darrin P. Lewis, Tony Jebara, William Stafford Nob...
WABI
2007
Springer
123views Bioinformatics» more  WABI 2007»
13 years 11 months ago
Inverse Sequence Alignment from Partial Examples
When aligning biological sequences, the choice of parameter values for the alignment scoring function is critical. Small changes in gap penalties, for example, can yield radically ...
Eagu Kim, John D. Kececioglu
BMCBI
2010
150views more  BMCBI 2010»
13 years 5 months ago
AMS 3.0: prediction of post-translational modifications
Background: We present here the recent update of AMS algorithm for identification of post-translational modification (PTM) sites in proteins based only on sequence information, us...
Subhadip Basu, Dariusz Plewczynski
IPPS
2006
IEEE
13 years 11 months ago
Bio-sequence database scanning on a GPU
Protein sequences with unknown functionality are often compared to a set of known sequences to detect functional similarities. Efficient dynamic programming algorithms exist for t...
Weiguo Liu, Bertil Schmidt, Gerrit Voss, Adrian Sc...
BMCBI
2007
233views more  BMCBI 2007»
13 years 5 months ago
160-fold acceleration of the Smith-Waterman algorithm using a field programmable gate array (FPGA)
Background: To infer homology and subsequently gene function, the Smith-Waterman (SW) algorithm is used to find the optimal local alignment between two sequences. When searching s...
Isaac T. S. Li, Warren Shum, Kevin Truong