Please use this identifier to cite or link to this item:
|Title:||Antibody-specified B-cell epitope prediction in line with the principle of context-awareness|
|Citation:||Zhao, L., Wong, L., Li, J. (2011). Antibody-specified B-cell epitope prediction in line with the principle of context-awareness. IEEE/ACM Transactions on Computational Biology and Bioinformatics 8 (6) : 1483-1494. ScholarBank@NUS Repository. https://doi.org/10.1109/TCBB.2011.49|
|Abstract:||Context-awareness is a characteristic in the recognition between antigens and antibodies, highlighting the reconfiguration of epitope residues when an antigen interacts with a different antibody. A coarse binary classification of antigen regions into epitopes, or nonepitopes without specifying antibodies may not accurately reflect this biological reality. Therefore, we study an antibody-specified epitope prediction problem in line with this principle. This problem is new and challenging as we pinpoint a subset of the antigenic residues from an antigen when it binds to a specific antibody. We introduce two kinds of associations of the contextual awareness: 1) residues-residues pairing preference, and 2) the dependence between sets of contact residue pairs. Preference plays a bridging role to link interacting paratope and epitope residues while dependence is used to extend the association from one-dimension to two-dimension. The paratope/epitope residues' relative composition, cooperativity ratios, and Markov properties are also utilized to enhance our method. A nonredundant data set containing 80 antibody-antigen complexes is compiled and used in the evaluation. The results show that our method yields a good performance on antibody-specified epitope prediction. On the traditional antibody-ignored epitope prediction problem, a simplified version of our method can produce a competitive, sometimes much better, performance in comparison with three structure-based predictors. © 2011 IEEE.|
|Source Title:||IEEE/ACM Transactions on Computational Biology and Bioinformatics|
|Appears in Collections:||Staff Publications|
Show full item record
Files in This Item:
There are no files associated with this item.
checked on Mar 20, 2019
WEB OF SCIENCETM
checked on Mar 20, 2019
checked on Mar 17, 2019
Items in DSpace are protected by copyright, with all rights reserved, unless otherwise indicated.