Cancer Epitopes Track Settings
 
Cancer Epitopes: Human tumor antigens recognized by CD4+ or CD8+ T cells

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Data schema/format description and download
Assembly: Human Feb. 2009 (GRCh37/hg19)
Data last updated at UCSC: 2015-02-05 10:14:07

Description

The Peptide Database of the journal Cancer Immunity is a curated list of Human Tumor antigens (peptides) expressed in tumors, presented by HLA molecules and recognized by CD4+ or CD8+ T cells. It has been assembled from the published literature by Pierre van der Bruggen, Vincent Stroobant, Nathalie Vigneron, and Benoit Van den Eynde.

Each peptide is annotated with a GeneCard link for the encoding gene and/or the parent protein, the HLA presenting molecule and its frequency in Caucasians, the peptide sequence and its position in the protein sequence, the method used to isolate the CTL recognizing the antigen and a PubMed link to the relevant reference.

For questions on this dataset, please contact the original authors, their emails can be found at the bottom of the Cancer Immunity Peptide Website.

The field "peptide type" can have one of three special values:

  • shared: shared by many tumors, not in normal
  • differentiation: also expressed in normal tissue of origin
  • overexpressed: expressed in a wide variety of normal tissues but overexpressed in tumors

Credits

This track shows peptides from http://cancerimmunity.org/peptide/ that have been reported in the literature to be presented on HLA molecules and recognized by CD4+ or CD8+ T-cells.
Data were provided by: Pierre van der Bruggen, Vincent Stroobant, Nathalie Vigneron, and Benoît Van den Eynd

Peptides are separated into four different types:

  • Tumor antigens resulting from mutation, only presented by a specific tumor
  • Shared tumor-specific antigens, presented by many tumors but not in normal cells
  • Differentiation antigens, also expressed in the normal tissue of origin
  • Antigens overexpressed in tumors, expressed in a wide variety of normal tissues but overexpressed in tumors

Information was downloaded from the Peptide Database, formatted as a table with a custom Python script. Gene symbols were mapped to UniProt via NCBI Entrez, wild-type sequences were then retrieved from UniProt and mapped to the genome with BLAT and pslMap by Maximilian Haeussler.

References

Vigneron N, Stroobant V, Van den Eynde BJ, van der Bruggen P. (2013) "Database of T cell-defined human tumor antigens: the 2013 update." Cancer Immun, 13(15), 2013