Biblio

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2008
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     
2007
Chen, BY, Bryant DH, Fofanov VY, Kristensen DM, Cruess AE, Kimmel M, Lichtarge O, Kavraki LE.  2007.  Cavity Scaling: Automated Refinement of Cavity-Aware Motifs in Protein Function Prediction. Journal of Bioinformatics and Computational Biology. 5:353-382.
Abstract      Preprint PDF     
Chen, BY, Fofanov VY, Bryant DH, Dodson BD, Kristensen DM, Lisewski AM, Kimmel M, Lichtarge O, Kavraki LE.  2007.  The MASH Pipeline for Protein Function Prediction and an Algorithm for the Geometric Refinement of 3D Motifs. Journal of Computational Biology. 14:791-816.
Abstract      Preprint PDF     Publisher's web site     
Chen, BY, Bryant DH, Cruess AE, Bylund JH, Fofanov VY, Kimmel M, Lichtarge O, Kavraki LE.  2007.  Composite Motifs Integrating Multiple Protein Structures Increase Sensitivity for Function Prediction. Computational Systems Bioinformatics Conference (CSB2007). :343-355.
Abstract      Preprint PDF     
2006
Chen, BY, Bryant DH, Fofanov VY, Kristensen DM, Cruess AE, Kimmel M, Lichtarge O, Kavraki LE.  2006.  Cavity-Aware Motifs Reduce False Positives in Protein Function Prediction. Systems Bioinformatics Conference (CSB). 4:311-323.
Abstract      Publisher's web site     
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