Knowledge Management System Of Shanghai Institute of Applied Physics, CAS
| Improving B-cell epitope prediction and its application to global antibody-antigen docking | |
| Krawczyk, K; Liu, XF; Baker, T; Shi, J; Deane, CM; deane@stats.ox.ac.uk | |
| 2014 | |
| Source Publication | BIOINFORMATICS
 |
| ISSN | 1367-4803 |
| Volume | 30Issue:16Pages:2288—2294 |
| Abstract | Motivation: Antibodies are currently the most important class of biopharmaceuticals. Development of such antibody-based drugs depends on costly and time-consuming screening campaigns. Computational techniques such as antibody-antigen docking hold the potential to facilitate the screening process by rapidly providing a list of initial poses that approximate the native complex. Results: We have developed a new method to identify the epitope region on the antigen, given the structures of the antibody and the antigen-EpiPred. The method combines conformational matching of the antibody-antigen structures and a specific antibody-antigen score. We have tested the method on both a large non-redundant set of antibody-antigen complexes and on homology models of the antibodies and/or the unbound antigen structure. On a non-redundant test set, our epitope prediction method achieves 44% recall at 14% precision against 23% recall at 14% precision for a background random distribution. We use our epitope predictions to rescore the global docking results of two rigid-body docking algorithms: ZDOCK and ClusPro. In both cases including our epitope, prediction increases the number of near-native poses found among the top decoys. |
| Keyword | Protein-docking Algorithm |
| Indexed By | SCI |
| Language | 英语 |
| WOS ID | WOS:000342746000007 |
| Citation statistics | |
| Document Type | 期刊论文 |
| Identifier | http://ir.sinap.ac.cn/handle/331007/14183 |
| Collection | 中科院上海应用物理研究所2011-2019年 |
| Corresponding Author | deane@stats.ox.ac.uk |
| Recommended Citation GB/T 7714 | Krawczyk, K,Liu, XF,Baker, T,et al. Improving B-cell epitope prediction and its application to global antibody-antigen docking[J]. BIOINFORMATICS,2014,30(16):2288—2294. |
| APA | Krawczyk, K,Liu, XF,Baker, T,Shi, J,Deane, CM,&deane@stats.ox.ac.uk.(2014).Improving B-cell epitope prediction and its application to global antibody-antigen docking.BIOINFORMATICS,30(16),2288—2294. |
| MLA | Krawczyk, K,et al."Improving B-cell epitope prediction and its application to global antibody-antigen docking".BIOINFORMATICS 30.16(2014):2288—2294. |
| Files in This Item: | Download All | |||||
| File Name/Size | DocType | Version | Access | License | ||
| Improving B-cell epi（415KB） | 开放获取 | CC BY-NC-SA | View Download | |||
Items in the repository are protected by copyright, with all rights reserved, unless otherwise indicated.
Edit Comment