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CIBCB
2005
IEEE
14 years 1 months ago
The Homology Kernel: A Biologically Motivated Sequence Embedding into Euclidean Space
— Part of the challenge of modeling protein sequences is their discrete nature. Many of the most powerful statistical and learning techniques are applicable to points in a Euclid...
Eleazar Eskin, Sagi Snir
BMCBI
2011
12 years 11 months ago
Conotoxin Protein Classification Using Free Scores of Words and Support Vector Machines
Background: Conotoxin has been proven to be effective in drug design and could be used to treat various disorders such as schizophrenia, neuromuscular disorders and chronic pain. ...
Nazar Zaki, Stefan Wolfsheimer, Grégory Nue...
BMCBI
2006
125views more  BMCBI 2006»
13 years 7 months ago
Automated functional classification of experimental and predicted protein structures
Background: Proteins that are similar in sequence or structure may perform different functions in nature. In such cases, function cannot be inferred from sequence or structural si...
Kai Wang, Ram Samudrala
BMCBI
2005
100views more  BMCBI 2005»
13 years 7 months ago
EvDTree: structure-dependent substitution profiles based on decision tree classification of 3D environments
Background: Structure-dependent substitution matrices increase the accuracy of sequence alignments when the 3D structure of one sequence is known, and are successful e.g. in fold ...
Jean-Christophe Gelly, Laurent Chiche, Jér&...
NIPS
2008
13 years 9 months ago
Tighter Bounds for Structured Estimation
Large-margin structured estimation methods minimize a convex upper bound of loss functions. While they allow for efficient optimization algorithms, these convex formulations are n...
Olivier Chapelle, Chuong B. Do, Quoc V. Le, Alexan...