Detection of Outlier Residues for Improving Interface Prediction in Protein Hetero-complexes
暂无分享,去创建一个
Jinyan Li | Limsoon Wong | Peng Chen | Jinyan Li | L. Wong | Peng Chen | Jinyan Li | Limsoon Wong | Peng Chen
[1] J. Janin,et al. A dissection of specific and non-specific protein-protein interfaces. , 2004, Journal of molecular biology.
[2] Chih-Jen Lin,et al. LIBSVM: A library for support vector machines , 2011, TIST.
[3] Xiaolong Wang,et al. Exploiting residue-level and profile-level interface propensities for usage in binding sites prediction of proteins , 2007, BMC Bioinformatics.
[4] S. Jones,et al. Principles of protein-protein interactions. , 1996, Proceedings of the National Academy of Sciences of the United States of America.
[5] Oliviero Carugo,et al. CX, an algorithm that identifies protruding atoms in proteins , 2002, Bioinform..
[6] N. Ben-Tal,et al. Residue frequencies and pairing preferences at protein–protein interfaces , 2001, Proteins.
[7] Stephen Marsland,et al. On-Line Novelty Detection through self-organisation with application to inspection robotics , 2001 .
[8] P. Bourne,et al. Exploiting sequence and structure homologs to identify protein–protein binding sites , 2005, Proteins.
[9] Oliviero Carugo,et al. DPX: for the analysis of the protein core , 2003, Bioinform..
[10] A. Madansky. Identification of Outliers , 1988 .
[11] Chih-Jen Lin,et al. A sequential dual method for large scale multi-class linear svms , 2008, KDD.
[12] R. Kini,et al. Prediction of potential protein‐protein interaction sites from amino acid sequence , 1996, FEBS letters.
[13] Gregory R. Grant,et al. Bioinformatics - The Machine Learning Approach , 2000, Comput. Chem..
[14] J. Janin,et al. Dissecting protein–protein recognition sites , 2002, Proteins.
[15] R. Doolittle,et al. A simple method for displaying the hydropathic character of a protein. , 1982, Journal of molecular biology.
[16] Song Liu,et al. Protein binding site prediction using an empirical scoring function , 2006, Nucleic acids research.
[17] David R. Westhead,et al. Improved prediction of protein-protein binding sites using a support vector machines approach. , 2005, Bioinformatics.
[18] W. R. Buckland,et al. Outliers in Statistical Data , 1979 .
[19] VARUN CHANDOLA,et al. Anomaly detection: A survey , 2009, CSUR.
[20] Zengyou He,et al. Mining class outliers: concepts, algorithms and applications in CRM , 2004, Expert Syst. Appl..
[21] Bonnie Berger,et al. Struct2Net: Integrating Structure into Protein-Protein Interaction Prediction , 2005, Pacific Symposium on Biocomputing.
[22] Jinyan Li,et al. Sequence-based identification of interface residues by an integrative profile combining hydrophobic and evolutionary information , 2010, BMC Bioinformatics.
[23] Sarah A. Teichmann,et al. 3D Complex: A Structural Classification of Protein Complexes , 2006, PLoS Comput. Biol..
[24] R. Jernigan,et al. Identification of kinetically hot residues in proteins , 1998, Protein science : a publication of the Protein Society.
[25] Burkhard Rost,et al. ISIS: interaction sites identified from sequence , 2007, Bioinform..
[26] Z. Weng,et al. Protein–protein docking benchmark 2.0: An update , 2005, Proteins.
[27] Peter J. Rousseeuw,et al. Robust regression and outlier detection , 1987 .
[28] J. Janin,et al. Dissecting subunit interfaces in homodimeric proteins , 2003, Proteins.
[29] G J Kleywegt,et al. Phi/psi-chology: Ramachandran revisited. , 1996, Structure.
[30] Aleksey A. Porollo,et al. Prediction‐based fingerprints of protein–protein interactions , 2006, Proteins.
[31] Zengyou He,et al. Outlier Detection Integrating Semantic Knowledge , 2002, WAIM.
[32] T. N. Bhat,et al. The Protein Data Bank , 2000, Nucleic Acids Res..
[33] Huan-Xiang Zhou,et al. Interaction-site prediction for protein complexes: a critical assessment , 2007, Bioinform..
[34] R. Nussinov,et al. How similar are protein folding and protein binding nuclei? Examination of vibrational motions of energy hot spots and conserved residues. , 2005, Biophysical journal.
[35] C. Sander,et al. Database of homology‐derived protein structures and the structural meaning of sequence alignment , 1991, Proteins.
[36] Huan-Xiang Zhou,et al. Prediction of interface residues in protein–protein complexes by a consensus neural network method: Test against NMR data , 2005, Proteins.
[37] R. Laskowski. SURFNET: a program for visualizing molecular surfaces, cavities, and intermolecular interactions. , 1995, Journal of molecular graphics.
[38] Alfonso Valencia,et al. Progress and challenges in predicting protein-protein interaction sites , 2008, Briefings Bioinform..
[39] Peng Chen,et al. Predicting protein interaction sites from residue spatial sequence profile and evolution rate , 2006, FEBS Letters.
[40] M. Šikić,et al. PSAIA – Protein Structure and Interaction Analyzer , 2008, BMC Structural Biology.
[41] Andrew P. Bradley,et al. The use of the area under the ROC curve in the evaluation of machine learning algorithms , 1997, Pattern Recognit..
[42] Corinna Cortes,et al. Support-Vector Networks , 1995, Machine Learning.
[43] R. Raz,et al. ProMate: a structure based prediction program to identify the location of protein-protein binding sites. , 2004, Journal of molecular biology.
[44] S. Jones,et al. Prediction of protein-protein interaction sites using patch analysis. , 1997, Journal of molecular biology.
[45] Tom Fawcett,et al. Activity monitoring: noticing interesting changes in behavior , 1999, KDD '99.
[46] Kristian Vlahovicek,et al. Prediction of Protein–Protein Interaction Sites in Sequences and 3D Structures by Random Forests , 2009, PLoS Comput. Biol..
[47] W. Delano. The PyMOL Molecular Graphics System , 2002 .
[48] Xue-wen Chen,et al. Sequence-based prediction of protein interaction sites with an integrative method , 2009, Bioinform..
[49] Nathalie Japkowicz,et al. A Novelty Detection Approach to Classification , 1995, IJCAI.
[50] P. Chakrabarti,et al. Conservation and relative importance of residues across protein-protein interfaces , 2005, Proceedings of the National Academy of Sciences of the United States of America.