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Molecular and pharmacological modulators of the tumor immune contexture revealed by deconvolution of RNA-seq data.
- Source :
- Genome Medicine; 5/24/2019, Vol. 11 Issue 1, pN.PAG-N.PAG, 1p
- Publication Year :
- 2019
-
Abstract
- We introduce quanTIseq, a method to quantify the fractions of ten immune cell types from bulk RNA-sequencing data. quanTIseq was extensively validated in blood and tumor samples using simulated, flow cytometry, and immunohistochemistry data. quanTIseq analysis of 8000 tumor samples revealed that cytotoxic T cell infiltration is more strongly associated with the activation of the CXCR3/CXCL9 axis than with mutational load and that deconvolution-based cell scores have prognostic value in several solid cancers. Finally, we used quanTIseq to show how kinase inhibitors modulate the immune contexture and to reveal immune-cell types that underlie differential patients' responses to checkpoint blockers. Availability: quanTIseq is available at http://icbi.at/quantiseq. [ABSTRACT FROM AUTHOR]
- Subjects :
- RNA sequencing
TUMOR immunology
IMMUNOHISTOCHEMISTRY
CYTOTOXIC T cells
IMMUNOTHERAPY
Subjects
Details
- Language :
- English
- ISSN :
- 1756994X
- Volume :
- 11
- Issue :
- 1
- Database :
- Complementary Index
- Journal :
- Genome Medicine
- Publication Type :
- Academic Journal
- Accession number :
- 136648256
- Full Text :
- https://doi.org/10.1186/s13073-019-0638-6