[1] “Cancer Vaccine Principle”, by BioRender.com (2022). Retrieved from “https://app.biorender.com/biorender-templates”.
[2] R. Vita, S. Mahajan, J. A. Overton, S. K. Dhanda, S. Martini, J. R. Cantrell, D. K. Wheeler,
A. Sette, and B. Peters, “The immune epitope database (iedb): 2018 update,” Nucleic acids
research, vol. 47, no. D1, pp. D339-D343, 2019.
[3] M. Nielsen, C. Lundegaard, T. Blicher, K. Lamberth, M. Harndahl, S. Justesen, G. Røder,
B. Peters, A. Sette, O. Lund et al., “Netmhcpan, a method for quantitative predictions of peptide
binding to any hla-a and-b locus protein of known sequence,” PloS one, vol. 2, no. 8, p. e796,
2007.
[4] A. Rives, J. Meier, T. Sercu, S. Goyal, Z. Lin, J. Liu, D. Guo, M. Ott, C. L. Zitnick, J. Ma
et al., “Biological structure and function emerge from scaling unsupervised learning to 250
million protein sequences,” Proceedings of the National Academy of Sciences, vol. 118, no. 15,
p. e2016239118, 2021
[5] Devlin, Jacob, et al. "Bert: Pre-training of deep bidirectional transformers for language understanding." arXiv preprint arXiv:1810.04805 (2018).
[6] S. Kawashima, P. Pokarowski, M. Pokarowska, A. Kolinski, T. Katayama, and M. Kanehisa,
“Aaindex: amino acid index database, progress report 2008,” Nucleic acids research, vol. 36, no.
suppl_1, pp. D202-D205, 2007.
[7] S. Henikoff and J. G. Henikoff, “Amino acid substitution matrices from protein blocks.” Pro-
ceedings of the National Academy of Sciences, vol. 89, no. 22, pp. 10 915-10 919, 1992.
[8] J. Vig, A. Madani, L. R. Varshney, C. Xiong, R. Socher, and N. F. Rajani, “Bertology meets
biology: interpreting attention in protein language models,” arXiv preprint arXiv:2006.15222,
2020.
[9] R.Hormazabal, D.Hwang, K.Kim, S.Han, K.Bae, H.Lee et al., “Allele-conditional attention mechanism for
HLA-peptide complex binding affinity prediction,” NeurIPS Machine Learning for Structural Biology Workshop, 2022.
