Improving the sensitivity and specificity of protein homology search by incorporating predicted secondary structures

Authors:
Bin Ma;Lieyu Wu;Kaizhong Zhang
Affiliations:
Department of Computer Science, University of Western Ontario, London, ON, Canada;Department of Computer Science, University of Western Ontario, London, ON, Canada;Department of Computer Science, University of Western Ontario, London, ON, Canada
Venue:
ICCS'05 Proceedings of the 5th international conference on Computational Science - Volume Part II
Year:
2005

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Abstract

In this paper, we improve the homology search performance by the combination of the predicted protein secondary structures and protein sequences. Previous research suggested that the straightforward combination of predicted secondary structures did not improve the homology search performance, mostly because the errors in the structure prediction. We solved this problem by taking into account the confidence scores output by the prediction programs.