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Cancer Immunol Immunother. 2018 Jul;67(7):1031-1040. doi: 10.1007/s00262-018-2150-z. Epub 2018 Mar 14.

Quantifying tumor-infiltrating immune cells from transcriptomics data.

Author information

1
Biocenter, Division for Bioinformatics, Medical University of Innsbruck, Innrain 80, 6020, Innsbruck, Austria. francesca.finotello@i-med.ac.at.
2
Biocenter, Division for Bioinformatics, Medical University of Innsbruck, Innrain 80, 6020, Innsbruck, Austria. zlatko.trajanoski@i-med.ac.at.

Abstract

By exerting pro- and anti-tumorigenic actions, tumor-infiltrating immune cells can profoundly influence tumor progression, as well as the success of anti-cancer therapies. Therefore, the quantification of tumor-infiltrating immune cells holds the promise to unveil the multi-faceted role of the immune system in human cancers and its involvement in tumor escape mechanisms and response to therapy. Tumor-infiltrating immune cells can be quantified from RNA sequencing data of human tumors using bioinformatics approaches. In this review, we describe state-of-the-art computational methods for the quantification of immune cells from transcriptomics data and discuss the open challenges that must be addressed to accurately quantify immune infiltrates from RNA sequencing data of human bulk tumors.

KEYWORDS:

Deconvolution; Gene expression; NGS; Next-generation sequencing; RNA-seq; TILs

PMID:
29541787
PMCID:
PMC6006237
DOI:
10.1007/s00262-018-2150-z
[Indexed for MEDLINE]
Free PMC Article

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