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BMCBI
2008
78views more  BMCBI 2008»
15 years 6 months ago
A new protein linear motif benchmark for multiple sequence alignment software
Background: Linear motifs (LMs) are abundant short regulatory sites used for modulating the functions of many eukaryotic proteins. They play important roles in post-translational ...
Emmanuel Perrodou, Claudia Chica, Olivier Poch, To...
SIAMSC
2008
129views more  SIAMSC 2008»
15 years 6 months ago
Iterative Solution of Piecewise Linear Systems
The correct formulation of numerical models for free-surface hydrodynamics often requires the solution of special linear systems whose coefficient matrix is a piecewise constant fu...
Luigi Brugnano, Vincenzo Casulli
ML
2002
ACM
167views Machine Learning» more  ML 2002»
15 years 6 months ago
Linear Programming Boosting via Column Generation
We examine linear program (LP) approaches to boosting and demonstrate their efficient solution using LPBoost, a column generation based simplex method. We formulate the problem as...
Ayhan Demiriz, Kristin P. Bennett, John Shawe-Tayl...
ISPD
2006
ACM
158views Hardware» more  ISPD 2006»
16 years 12 days ago
Effective linear programming based placement methods
Linear programming (LP) based methods are attractive for solving the placement problem because of their ability to model Half-Perimeter Wirelength (HPWL) and timing. However, it h...
Sherief Reda, Amit Chowdhary
BMCBI
2006
139views more  BMCBI 2006»
15 years 6 months ago
Improvement in accuracy of multiple sequence alignment using novel group-to-group sequence alignment algorithm with piecewise li
Background: Multiple sequence alignment (MSA) is a useful tool in bioinformatics. Although many MSA algorithms have been developed, there is still room for improvement in accuracy...
Shinsuke Yamada, Osamu Gotoh, Hayato Yamana