Computational characterization of B-cell epitopes.

[1]  Itay Mayrose,et al.  Stepwise prediction of conformational discontinuous B‐cell epitopes using the Mapitope algorithm , 2007, Proteins.

[2]  Benjamin A. Shoemaker,et al.  Deciphering Protein–Protein Interactions. Part I. Experimental Techniques and Databases , 2007, PLoS Comput. Biol..

[3]  Tal Pupko,et al.  In silico identification of functional regions in proteins , 2005, ISMB.

[4]  N. Ben-Tal,et al.  Comparison of site-specific rate-inference methods for protein sequences: empirical Bayesian methods are superior. , 2004, Molecular biology and evolution.

[5]  R. Raz,et al.  ProMate: a structure based prediction program to identify the location of protein-protein binding sites. , 2004, Journal of molecular biology.

[6]  Jonathan M Gershoni,et al.  The mapping and reconstitution of a conformational discontinuous B-cell epitope of HIV-1. , 2003, Journal of molecular biology.

[7]  R. Nussinov,et al.  Protein–protein interactions: Structurally conserved residues distinguish between binding sites and exposed protein surfaces , 2003, Proceedings of the National Academy of Sciences of the United States of America.

[8]  Maria Jesus Martin,et al.  The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003 , 2003, Nucleic Acids Res..

[9]  Sarah A. Teichmann,et al.  Principles of protein-protein interactions , 2002, ECCB.

[10]  Christopher T. Saunders,et al.  Evaluation of structural and evolutionary contributions to deleterious mutation prediction. , 2002, Journal of molecular biology.

[11]  J. Janin,et al.  Dissecting protein–protein recognition sites , 2002, Proteins.

[12]  Oleg V. Tsodikov,et al.  Novel computer program for fast exact calculation of accessible and molecular surface areas and average surface curvature , 2002, J. Comput. Chem..

[13]  Andrew C. R. Martin,et al.  SACS-Self-maintaining database of antibody crystal structure information , 2002, Bioinform..

[14]  J M Thornton,et al.  Conservation helps to identify biologically relevant crystal contacts. , 2001, Journal of molecular biology.

[15]  Nathan A. Baker,et al.  Electrostatics of nanosystems: Application to microtubules and the ribosome , 2001, Proceedings of the National Academy of Sciences of the United States of America.

[16]  Huan‐Xiang Zhou,et al.  Prediction of protein interaction sites from sequence profile and residue neighbor list , 2001, Proteins.

[17]  M. Sternberg,et al.  Automated structure-based prediction of functional sites in proteins: applications to assessing the validity of inheriting protein function from homology in genome annotation and to protein docking. , 2001, Journal of molecular biology.

[18]  Jamie K. Scott,et al.  Random-peptide libraries and antigen-fragment libraries for epitope mapping and the development of vaccines and diagnostics , 2001, Current Opinion in Chemical Biology.

[19]  D. Eisenberg,et al.  Three-dimensional cluster analysis identifies interfaces and functional residue clusters in proteins. , 2001, Journal of molecular biology.

[20]  Frank C. Hay,et al.  Epitope mapping : a practical approach , 2000 .

[21]  T. N. Bhat,et al.  The Protein Data Bank , 2000, Nucleic Acids Res..

[22]  R M Jackson,et al.  Comparison of protein–protein interactions in serine protease‐inhibitor and antibody‐antigen complexes: Implications for the protein docking problem , 2008, Protein science : a publication of the Protein Society.

[23]  Jaime Prilusky,et al.  Automated analysis of interatomic contacts in proteins , 1999, Bioinform..

[24]  C. Chothia,et al.  The atomic structure of protein-protein recognition sites. , 1999, Journal of molecular biology.

[25]  P E Bourne,et al.  Protein structure alignment by incremental combinatorial extension (CE) of the optimal path. , 1998, Protein engineering.

[26]  A. Bogan,et al.  Anatomy of hot spots in protein interfaces. , 1998, Journal of molecular biology.

[27]  S. Jones,et al.  Analysis of protein-protein interaction sites using surface patches. , 1997, Journal of molecular biology.

[28]  S. Jones,et al.  Prediction of protein-protein interaction sites using patch analysis. , 1997, Journal of molecular biology.

[29]  A G Murzin,et al.  SCOP: a structural classification of proteins database for the investigation of sequences and structures. , 1995, Journal of molecular biology.

[30]  J M Thornton,et al.  Protein-protein interactions: a review of protein dimer structures. , 1995, Progress in biophysics and molecular biology.

[31]  Y. Benjamini,et al.  Controlling the false discovery rate: a practical and powerful approach to multiple testing , 1995 .

[32]  E Westhof,et al.  Predicting location of continuous epitopes in proteins from their primary structures. , 1991, Methods in enzymology.

[33]  G. Air,et al.  Epitopes on protein antigens: Misconceptions and realities , 1990, Cell.

[34]  A M Lesk,et al.  Interior and surface of monomeric proteins. , 1987, Journal of molecular biology.

[35]  T. Hopp,et al.  Protein surface analysis. Methods for identifying antigenic determinants and other interaction sites. , 1986, Journal of immunological methods.

[36]  W R Taylor,et al.  Location of ‘continuous’ antigenic determinants in the protruding regions of proteins. , 1986, The EMBO journal.

[37]  G. Rose,et al.  Antigenic determinants in proteins coincide with surface regions accessible to large probes (antibody domains). , 1986, Proceedings of the National Academy of Sciences of the United States of America.

[38]  J. Berzofsky.  Intrinsic and extrinsic factors in protein antigenic structure. , 1985, Science.

[39]  R. Lerner,et al.  Mobility and evolutionary variability factors in protein antigenicity (reply) , 1985, Nature.

[40]  R. Jemmerson,et al.  Mobility and evolutionary variability factors in protein antigenicity , 1985, Nature.

[41]  D. Moras,et al.  Correlation between segmental mobility and the location of antigenic determinants in proteins , 1984, Nature.

[42]  J. Berzofsky,et al.  The antigenic structure of proteins: a reappraisal. , 1984, Annual review of immunology.

[43]  W. Kabsch,et al.  Dictionary of protein secondary structure: Pattern recognition of hydrogen‐bonded and geometrical features , 1983, Biopolymers.

[44]  K. R. Woods,et al.  Prediction of protein antigenic determinants from amino acid sequences. , 1981, Proceedings of the National Academy of Sciences of the United States of America.

[45]  A. Lilienfeld.  Foundations of Epidemiology , 1980 .

[46]  E. Margoliash,et al.  Topographic antigenic determinants on cytochrome c. Immunoadsorbent separation of the rabbit antibody populations directed against horse cytochrome. , 1979, The Journal of biological chemistry.

[47]  M. Atassi.  Precise determination of the entire antigenic structure of lysozyme: molecular features of protein antigenic structures and potential of "surface-simulation" synthesis--a powerful new concept for protein binding sites. , 1978, Immunochemistry.

[48]  M. Atassi,et al.  Antigenic structure of myoglobin: the complete immunochemical anatomy of a protein and conclusions relating to antigenic structures of proteins. , 1975, Immunochemistry.

[49]  R. Greenberg.  Biometry , 1969, The Yale Journal of Biology and Medicine.

[50]  M. Sela,et al.  Antibodies to a unique region in lysozyme provoked by a synthetic antigen conjugate. , 1969, Proceedings of the National Academy of Sciences of the United States of America.

[51]  N K JERNE,et al.  Immunological speculations. , 1960, Annual review of microbiology.

[52]  E. H. Simpson,et al.  The Interpretation of Interaction in Contingency Tables , 1951 .