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EPCES and EPSVR: Prediction of B-Cell Antigenic Epitopes on Protein Surfaces with Conformational Information

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Immunoinformatics

Part of the book series: Methods in Molecular Biology ((MIMB,volume 2131))

Abstract

Accurate prediction of discontinuous antigenic epitopes is important for immunologic research and medical applications, but it is not an easy problem. Currently, there are only a few prediction servers available, though discontinuous epitopes constitute the majority of all B-cell antigenic epitopes. In this chapter, we describe two online servers, EPCES and EPSVR, for discontinuous epitope prediction. All methods were benchmarked by a curated independent test set, in which all antigens had no complex structures with the antibody, and their epitopes were identified by various biochemical experiments. The servers and all datasets are available at http://sysbio.unl.edu/EPCES/ and http://sysbio.unl.edu/EPSVR/.

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Acknowledgments

The work is supported by funding under C.Z.’s startup funds from the University of Nebraska, Lincoln, NE. This work was completed utilizing the Holland Computing Center of the University of Nebraska.

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Authors and Affiliations

  1. Department of R&D, Bio-Thera Solutions, Guangzhou, China

    Shide Liang

  2. Department of Radiation Oncology, University of Nebraska Medical Center, Omaha, NE, USA

    Dandan Zheng

  3. Quantitative Biomedical Research Center, University of Texas Southwestern Medical Center, Dallas, TX, USA

    Bo Yao

  4. School of Biological Sciences, University of Nebraska – Lincoln, Lincoln, NE, USA

    Chi Zhang

Authors
  1. Shide Liang
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  2. Dandan Zheng
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  3. Bo Yao
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  4. Chi Zhang
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Corresponding author

Correspondence to Chi Zhang .

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Editors and Affiliations

  1. Department of BioMedical Engineering, Medical College of Wisconsin, Milwaukee, WI, USA

    Namrata Tomar

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Liang, S., Zheng, D., Yao, B., Zhang, C. (2020). EPCES and EPSVR: Prediction of B-Cell Antigenic Epitopes on Protein Surfaces with Conformational Information. In: Tomar, N. (eds) Immunoinformatics. Methods in Molecular Biology, vol 2131. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-0389-5_16

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  • DOI: https://doi.org/10.1007/978-1-0716-0389-5_16

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  • Publisher Name: Humana, New York, NY

  • Print ISBN: 978-1-0716-0388-8

  • Online ISBN: 978-1-0716-0389-5

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