Campus Event Calendar
Event Entry
What and Who
Remote Homology Detection: a motif based approach
Asa Ben-Hur
Stanford University
Talk
AG 1, AG 2, AG 3, AG 4
MPI Audience
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Date, Time and Location
Tuesday, 22 July 2003
11:00
-- Not specified --
46.1 - MPII
024
Saarbrücken
Abstract
Remote homology detection is the problem of detecting homology in cases
of low sequence similarity.
It is a hard computational problem with no approach
that works well in
all cases.
We present a method for detecting remote homology
that is based on the presence of discrete sequence motifs.
The motif content of
a pair of sequences is used to define a similarity
that is used as a kernel for
a Support Vector Machine (SVM) classifier.
We test the method on a remote
homology detection tasks derived from the
SCOP database, and show that it
performs as well as methods that use
features based on BLAST and HMMs.
of low sequence similarity.
It is a hard computational problem with no approach
that works well in
all cases.
We present a method for detecting remote homology
that is based on the presence of discrete sequence motifs.
The motif content of
a pair of sequences is used to define a similarity
that is used as a kernel for
a Support Vector Machine (SVM) classifier.
We test the method on a remote
homology detection tasks derived from the
SCOP database, and show that it
performs as well as methods that use
features based on BLAST and HMMs.
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