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2010
Bryant, DH, Moll M, Chen BY, Fofanov VY, Kavraki LE.  2010.  Analysis of substructural variation in families of enzymatic proteins with applications to protein function prediction. BMC Bioinformatics. 11:242.
Abstract      Preprint PDF     Publisher's web site     
2009
Haspel, N, Geisbrecht B, Lambris JD, Kavraki LE.  2009.  Multi-scale Characterization of the Energy Landscape of Proteins with Application to the C3d/Efb-C Complex. Proteins: Structure, function and bioinformatics. 78:1004-1014.
Publisher's web site     
2008
Moll, M, Kavraki LE.  2008.  LabelHash: A Flexible and Extensible Method for Matching Structural Motifs. Automated Function Prediction / BioSapiens meeting (AFP-BioSapiens).
Preprint PDF     Publisher's web site     
Moll, M, Kavraki LE.  2008.  Matching of Structural Motifs Using Hashing on Residue Labels and Geometric Filtering for Protein Function Prediction. The Seventh Annual International Conference on Computational Systems Bioinformatics (CSB2008). :157-168.
Abstract      Preprint PDF     Publisher's web site     
Kristensen, DM, Ward MR, Lisewski AM, Edrin S, Chen BY, Fofanov VY, Kimmel M, Lichtarge O.  2008.  Prediction of enzyme function based on 3D templates of evolutionarily important amino acids. BMC Bioinformatics. 9(17)
Abstract      Publisher's web site     
Fofanov, VY, Chen BY, Bryant DH, Moll M, Lichtarge O, Kavraki LE, Kimmel M.  2008.  A Statistical Model to Correct Systematic Bias Introduced by Algorithmic Thresholds in Protein Structural Comparison Algorithms. IEEE Intl. Conf. on Bioinformatics and Biomedicine (BIBM).
Abstract      Preprint PDF     Publisher's web site     
2006
Chen, BY, Fofanov VY, Bryant DH, Dodson BD, Kristensen DM, Lisewski AM, Kimmel M, Lichtarge O, Kavraki LE.  2006.  Geometric Sieving: Automated Distributed Optimization of 3D Motifs for Protein Function Prediction. Research in Computational Biology: 10th Annual International Conference (RECOMB).
Abstract      Publisher's web site