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TSNAD and TSNAdb: The Useful Toolkit for Clinical Application of Tumor-Specific Neoantigens

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Computational Vaccine Design

Part of the book series: Methods in Molecular Biology ((MIMB,volume 2673))

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Abstract

Tumor-specific neoantigens play important roles in tumor immunotherapy. How to predict neoantigens accurately and efficiently has attracted much attention. TSNAD is the first one-stop neoantigen prediction tool from next-generation sequencing data, and TSNAdb provides both predicted and validated neoantigens based on pan-cancer immunogenomics analyses. In this chapter, we describe the usage of TSNAD and TSNAdb for the clinical application of neoantigens. The latest version of TSNAD is available at https://pgx.zju.edu.cn/tsnad, and the latest version of TSNAdb is available at https://pgx.zju.edu.cn/tsnadb.

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Acknowledgments

This work was supported by the National Natural Science Foundation of China (Grant No. 31971371), the Key R&D Program of Zhejiang Province (Grant No. 2020C03010), and the Alibaba-Zhejiang University Joint Research Center of Future Digital Healthcare. We thank the Information Technology Center, State Key Lab of CAD&CG, and Innovation Institute for Artificial Intelligence in Medicine, Zhejiang University for the support of computing resources. We also gratefully acknowledge the TCGA Research Network for referencing the TCGA datasets, and the TCIA for referencing HLA-type data of TCGA samples.

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Authors and Affiliations

  1. Innovative Institute for Artificial Intelligence in Medicine and Zhejiang Provincial Key Laboratory of Anti-Cancer Drug Research, College of Pharmaceutical Sciences, Zhejiang University, Hangzhou, Zhejiang, China

    Jingcheng Wu & Zhan Zhou

Authors
  1. Jingcheng Wu
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  2. Zhan Zhou
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Corresponding author

Correspondence to Zhan Zhou .

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Editors and Affiliations

  1. School of Medicine, Department of Immunology, Complutense University of Madrid, Madrid, Spain

    Pedro A. Reche

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© 2023 The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature

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Wu, J., Zhou, Z. (2023). TSNAD and TSNAdb: The Useful Toolkit for Clinical Application of Tumor-Specific Neoantigens. In: Reche, P.A. (eds) Computational Vaccine Design. Methods in Molecular Biology, vol 2673. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-3239-0_11

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  • DOI: https://doi.org/10.1007/978-1-0716-3239-0_11

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  • Publisher Name: Humana, New York, NY

  • Print ISBN: 978-1-0716-3238-3

  • Online ISBN: 978-1-0716-3239-0

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