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- W81444330 abstract "Functional annotation of newly sequenced genomes is an important challenge for computational biology systems. While much progress has been made towards scalingup experimental methods for functional assignment to putative genes, most current genomic annotation systems rely on computational solutions for homology modeling via sequence or structural similarity. We present a new method for remote homology detection that relies on combining probabilistic modeling and supervised learning in high-dimensional features spaces. Our system uses a transformation that converts protein domains to fixed-dimension representative feature vectors, where each feature records the sensitivity of each protein domain to a previously learned set of ‘protein motifs’ or ‘blocks’. Subsequently, the system utilizes Support Vector Machine (SVM) classifiers to learn the boundaries between structural protein classes. Our experiments suggest that this technique performs well relative to several other remote homology methods for the majority of protein domains in SCOP 1.37 PDB90. Author email: Beth.Logan@compaq.com, Pedro.Moreno@compaq.com c Compaq Computer Corporation, 2001 This work may not be copied or reproduced in whole or in part for any commercial purpose. Permission to copy in whole or in part without payment of fee is granted for nonprofit educational and research purposes provided that all such whole or partial copies include the following: a notice that such copying is by permission of the Cambridge Research Laboratory of Compaq Computer Corporation in Cambridge, Massachusetts; an acknowledgment of the authors and individual contributors to the work; and all applicable portions of the copyright notice. Copying, reproducing, or republishing for any other purpose shall require a license with payment of fee to the Cambridge Research Laboratory. All rights reserved. CRL Technical reports are available on the CRL’s web page at http://crl.research.compaq.com. Compaq Computer Corporation Cambridge Research Laboratory One Cambridge Center Cambridge, Massachusetts 02142 USA" @default.
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- W81444330 date "2001-01-01" @default.
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- W81444330 title "A Study of Remote Homology Detection" @default.
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