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. 2022 Oct 28;13:930590. doi: 10.3389/fimmu.2022.930590

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Copyright © 2022 Mendes, de Souza Bragatte, Vianna, de Freitas, Pöhner, Richter, Wade, Salzano and Vieira

This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

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The final result of MatchTope analysis: Hierarchical clustering is represented in a tree-based format. Pvclust provides two types of p-values: AU (Approximately Unbiased, red color) p-value and BP (Bootstrap Probability, green color) value. Branches inside red squares have an AU p-value higher than 95%, indicating a significant similarity between pMHCs clustered in that branch. There are three different clusters matching the different data sets used for MatchTope validation. (A) is related to the Hepatitis E Virus (HEV)-Specific T Cell Receptor study, (B) is the cluster from the throat cancer study, and (C) combines the clustering from the HCV and Dengue studies. Groups 1, 3, 5, 7, and 8 clustered epitopes that have cross-reactivity confirmed by in vitro data. Supplementary Table 1 presents the epitope list and which epitopes similarly trigger cross reactivity.