Table 2.
Computational tools for mimotope analysis.
| Tool Names* | Availabilities | Highlights and comments | Refs |
|---|---|---|---|
| PEPTIDE | Not stated | Relies on other commercial tools | [26] |
| Ganglberger | Not stated | Coarse-grained 3-dimensional search | [27] |
| FINDMAP | Not stated | Independent of template structure | [28] |
| SiteLight | Not stated | First patch-based method | [29] |
| Mapitope | http://pepitope.tau.ac.il | First pairs-based method | [30,31] |
| RELIC | http://relic.bio.anl.gov | A suite of 14 computational tools | [21] |
| 3DEX | http://www.schreiber-abc.com/3dex | First downloadable stand-alone tool | [32] |
| MIMOX | http://immunet.cn/mimox | First freely-accessible web server | [33] |
| MIMOP | Available upon request | Includes MimAlign and MimCons | [34] |
| EPIMAP | Not stated | Improved version of FINDMAP | [35] |
| PepSurf | http://pepitope.tau.ac.il | First graph-based method | [36] |
| Pepitope | http://pepitope.tau.ac.il | Server for Mapitope and PepSurf | [37] |
| Perschinka | Available upon request | Only tool coded with MATLAB | [38] |
| Pep-3D-Search | http://kyc.nenu.edu.cn/Pep3DSearch | Ant Colony Optimization algorithm | [39] |
| Denisova | Not stated | Based on the idea of Mapitope | [40,41,42] |
| EpiSearch | http://curie.utmb.edu/episearch.html | Impressive performance | [43] |
| SAROTUP | http://immunet.cn/sarotup | Detects target-unrelated peptides | [44] |
| MimoPro | http://59.73.198.183:8080/MimoPro | Fluctuating distance threshold |
* The name of the first author is used if the name of the computational tool is not available.