www.DrewBryant.com

The LabelHash Server and Tools for Substructure-Based Functional Annotation

Mark Moll, Drew H. Bryant, Lydia E. Kavraki. Bioinformatics. (2011)

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Analysis of substructural variation in families of enzymatic proteins with applications to protein function prediction

Drew H. Bryant, Mark Moll, Brian Y. Chen, Viacheslav Y. Fofanov, Lydia E. Kavraki. BMC Bioinformatics. (2010)

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The LabelHash algorithm for substructure matching

Mark Moll, Drew H. Bryant, Lydia E. Kavraki. BMC Bioinformatics. (2010)

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A statistical model to correct systematic bias introduced by algorithmic thresholds in protein structural comparison algorithms

Viacheslav Y. Fofanov, Brian Y. Chen, Drew H. Bryant, Mark Moll, Olivier Lichtarge, Lydia E. Kavraki, Marek Kimmel. Proceedings of the 2008 IEEE International Conference on Bioinformatics and Biomedicine, (BIBM 2008), Philadelphia, PA.

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Composite Motifs Integrating Multiple Protein Structures Increase Sensitivity For Function Prediction

Brian Y. Chen, Drew H. Bryant, Amanda E. Cruess, Joseph H. Bylund, Viacheslav Y. Fofanov, David M. Kristensen, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki. Proceedings of the 2007 IEEE Computational Systems Bioinformatics Conference, (CSB 2007), pp. 343-55. San Diego, CA, August 2007.

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The MASH Pipeline for Protein Function Prediction and an Algorithm for the Geometric Refinement of 3D Motifs

Brian Y. Chen, Viacheslav Y. Fofanov, Drew H. Bryant, Bradley D. Dodson, David M. Kristensen, Andreas M. Lisewski, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki. Journal of Computational Biology, vol. 14(6), pp. 791-816, 2007.

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Cavity Scaling: Automated Refinement of cavity aware motifs in protein function prediction

Brian Y. Chen, Drew H. Bryant, Viacheslav Y. Fofanov, David M. Kristensen, Amanda E. Cruess, Marek Kimmel, Olivier Lichtarge and Lydia E. Kavraki. Journal of Bioinformatics and Computational Biology, vol. 5(2a), pp. 353-382, 2007.

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Cavity-Aware Motifs Reduce False Positives in Protein Function Prediction

Brian Y. Chen*, Drew H. Bryant*, Viacheslav Y. Fofanov, David M. Kristensen, Amanda E. Cruess, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki. Proceedings of the 2006 IEEE Computational Systems Bioinformatics Conference (CSB 2006), pp. 311-23. Palo Alto, CA, August 2006.

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Geometric Sieving: Automated Distributed Optimization of 3D Motifs for Protein Function Prediction

Brian Y. Chen*, Viacheslav Y. Fofanov*, Drew H. Bryant, Bradley D. Dodson, David M. Kristensen, A. Martin Lisewski, Marek Kimmel, Olivier Lichtarge, Lydia E. Kavraki. Proceedings of The Tenth Annual International Conference on Computational Molecular Biology (RECOMB 2006), pp. 500-15. Venice, Italy, April 2006.

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