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Article Open Access

Overlap of the cancer genome atlas and the immune epitope database

  • Authors:
    • Shaimaa Sait
    • Timothy Fawcett
    • George Blanck

  • View Affiliations / Copyright

    Affiliations: Department of Molecular Medicine, Morsani College of Medicine, Tampa, FL 33612, USA, Department of Chemical and Biomedical Engineering, College of Engineering, Research Computing University of South Florida, Tampa, FL 33620, USA
    Copyright: © Sait et al. This is an open access article distributed under the terms of Creative Commons Attribution License.
  • Pages: 2982-2984
    |
    Published online on: August 10, 2016
       https://doi.org/10.3892/ol.2016.4991
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Abstract

Mutant peptides resulting from cancer drivers or passenger mutations are expected to have the potential to serve as a basis for cancer vaccines. However, a number of parameters regulate vaccine‑associated immunogenicity, including the suitability of a peptide for binding to an antigen‑presenting molecule or antibody. In order to obtain a basic indication of the prospect of human cancer epitope identification via current database development strategies, an overlap of the mutant Homo sapiens epitopes listed on the Immune Epitope Database (IEDB) and the mutant peptides indicated by The Cancer Genome Atlas (TCGA) somatic mutation database was obtained. No putative TCGA mutant peptides were detected among the 8,890 14‑18 amino acid (AA) IEDB peptides available. In total, 3 IEDB mutant epitopes that encompassed a TCGA mutant AA position, but did not overlap the exact position of the TCGA mutant AA, were detected. The results of the present analysis confirm that verification of certain aspects of cancer epitope function can be obtained via the continued and systematic expansion of databases representing human protein epitopes. However, the analysis also indicates that there is relatively limited systematic information available regarding antigen‑presenting molecule epitopes and cancer‑related mutant peptides.
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Copy and paste a formatted citation
Spandidos Publications style
Sait S, Fawcett T and Blanck G: Overlap of the cancer genome atlas and the immune epitope database. Oncol Lett 12: 2982-2984, 2016.
APA
Sait, S., Fawcett, T., & Blanck, G. (2016). Overlap of the cancer genome atlas and the immune epitope database. Oncology Letters, 12, 2982-2984. https://doi.org/10.3892/ol.2016.4991
MLA
Sait, S., Fawcett, T., Blanck, G."Overlap of the cancer genome atlas and the immune epitope database". Oncology Letters 12.4 (2016): 2982-2984.
Chicago
Sait, S., Fawcett, T., Blanck, G."Overlap of the cancer genome atlas and the immune epitope database". Oncology Letters 12, no. 4 (2016): 2982-2984. https://doi.org/10.3892/ol.2016.4991
Copy and paste a formatted citation
x
Spandidos Publications style
Sait S, Fawcett T and Blanck G: Overlap of the cancer genome atlas and the immune epitope database. Oncol Lett 12: 2982-2984, 2016.
APA
Sait, S., Fawcett, T., & Blanck, G. (2016). Overlap of the cancer genome atlas and the immune epitope database. Oncology Letters, 12, 2982-2984. https://doi.org/10.3892/ol.2016.4991
MLA
Sait, S., Fawcett, T., Blanck, G."Overlap of the cancer genome atlas and the immune epitope database". Oncology Letters 12.4 (2016): 2982-2984.
Chicago
Sait, S., Fawcett, T., Blanck, G."Overlap of the cancer genome atlas and the immune epitope database". Oncology Letters 12, no. 4 (2016): 2982-2984. https://doi.org/10.3892/ol.2016.4991
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