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. 2017 Dec 28;2017:2680160. doi: 10.1155/2017/2680160

Table 1.

Selected T-cell epitope prediction tools available online for free public use.

Tool URL Method1 MHC class A S T P Ref.
EpiDOCK http://epidock.ddg-pharmfac.net SB II — — — — [86]
MotifScan https://www.hiv.lanl.gov/content/immunology/motif_scan/motif_scan SM I and II — X — — —
Rankpep http://imed.med.ucm.es/Tools/rankpep.html MM I and II — — — X [26]
SYFPEITHI http://www.syfpeithi.de/ MM I and II — — — — [23]
MAPPP http://www.mpiib-berlin.mpg.de/MAPPP/ MM I — X — X [87]
PREDIVAC http://predivac.biosci.uq.edu.au/ MM II — — — — [88]
PEPVAC http://imed.med.ucm.es/PEPVAC/ MM I — X — X [63]
EPISOPT http://bio.med.ucm.es/episopt.html MM I — X — — [64]
Vaxign http://www.violinet.org/vaxign/ MM I and II — — — — [89]
MHCPred http://www.ddg-pharmfac.net/mhcpred/MHCPred/ QSAR I and II X — — — [34]
EpiTOP http://www.pharmfac.net/EpiTOP QSAR II X — — — [90]
BIMAS https://www-bimas.cit.nih.gov/molbio/hla_bind/ QAM I X [28]
TEPITOPE http://datamining-iip.fudan.edu.cn/service/TEPITOPEpan/TEPITOPEpan.html QAM II X — — — [32]
Propred http://www.imtech.res.in/raghava/propred/ QAM II X X — — [91]
Propred-1 http://www.imtech.res.in/raghava/propred1/ QAM I X X — X [92]
EpiJen http://www.ddg-pharmfac.net/epijen/EpiJen/EpiJen.htm QAM I X — X X [82]
IEDB-MHCI http://tools.immuneepitope.org/mhci/ Combined I X — — — [93]
IEDB-MHCII http://tools.immuneepitope.org/mhcii/ Combined II X — — — [93]
IL4pred http://webs.iiitd.edu.in/raghava/il4pred/index.php SVM II — — — — [67]
MULTIPRED2 http://cvc.dfci.harvard.edu/multipred2/index.php ANN I and II — X — — [62]
MHC2PRED http://www.imtech.res.in/raghava/mhc2pred/index.html SVM II — — — — [38]
NetMHC http://www.cbs.dtu.dk/services/NetMHC/ ANN I X — — — [49]
NetMHCII http://www.cbs.dtu.dk/services/NetMHCII/ ANN II X — — — [30]
NetMHCpan http://www.cbs.dtu.dk/services/NetMHCpan/ ANN I X — — — [54]
NetMHCIIpan http://www.cbs.dtu.dk/services/NetMHCIIpan/ ANN II X — — — [55]
nHLApred http://www.imtech.res.in/raghava/nhlapred/ ANN I — — — X [94]
SVMHC http://abi.inf.uni-tuebingen.de/Services/SVMHC/ SVM I and II — — — — [95]
SVRMHC http://us.accurascience.com/SVRMHCdb/ SVM I and II X — — — [46]
NetCTL http://www.cbs.dtu.dk/services/NetCTL/ ANN I X X X X [83]
WAPP https://abi.inf.uni-tuebingen.de/Services/WAPP/index_html SVM I — — X X [37]

1Method used for prediction of peptide-MHC binding. Keys for methods: SM: sequence motif; SB: structure-based; MM: motif matrix; QAM: quantitative affinity matrix; SVM: support vector machine; ANN: artificial neural network; QSAR: quantitative structure-activity relationship model; combined: tool uses different methods including ANN and QAM, selecting the more appropriate method for each distinct MHC molecule. The table also indicates whether the tools predict quantitative binding affinity (A), supertypes (S), TAP binding (T), and proteasomal cleavage (P); marked with an X in the affirmative case.