IEDB Analysis Resource

Proteasomal Cleavage Prediction - References

NetChop/NetCTL/NetCTLpan
NetChop:
M. Nielsen, C. Lundegaard, O. Lund, and C. Kesmir. 2005. The role of the proteasome in generating cytotoxic T cell epitopes: Insights obtained from improved predictions of proteasomal cleavage. Immunogenetics.57:33-41. [PMID: 15744535]

P. Saxova, S. Buus, S. Brunak, and C. Kesmir. 2003. Predicting proteasomal cleavage sites: a comparison of available methods. Int Immunol. 15 :781-7. [PMID: 12807816] Download PDF

C. Kesmir, A. Nussbaum, Hansjorg Schild, Vincent Detours, and S. Brunak. 2002. Prediction of proteasome cleavage motifs by neural networks. Prot. Eng. 15(4):287-296. [PMID: 11983929] Download PDF

NetCTL:
Larsen M.V., Lundegaard C., Lamberth K., Buus S., Lund O., and Nielsen M. 2007. Large-Scale validation of methods for cytotoxic T-lymphocyte epitope prediction. BMC Bioinformatics 8:424. [PMID: 17973982] Download PDF

Larsen M.V., Lundegaard C., Kasper Lamberth, Buus S,. Brunak S., Lund O., and Nielsen M. 2005. An integrative approach to CTL epitope prediction: A combined algorithm integrating MHC-I binding, TAP transport efficiency, and proteasomal cleavage predictions. European Journal of Immunology 35(8):2295-303. [PMID: 15997466]

NetCTLpan:
Stranzl T., Larsen M.V., Lundegaard C., Nielsen M. NetCTLpan: pan-specific MHC class I pathway epitope predictions. Immunogenetics 62(6):357-68. [PMID: 11983929] Download PDF