Journal article

A Gene Signature Predicting Natural Killer Cell Infiltration and Improved Survival in Melanoma Patients

Joseph Cursons, Fernando Souza-Fonseca-Guimaraes, Momeneh Foroutan, Ashley Anderson, Frederic HoHande, Soroor Hediyeh-Zadeh, Andreas Behren, Nicholas D Huntington, Melissa J Davis

CANCER IMMUNOLOGY RESEARCH | AMER ASSOC CANCER RESEARCH | Published : 2019

Abstract

Natural killer (NK) cell activity is essential for initiating antitumor responses and may be linked to immunotherapy success. NK cells and other innate immune components could be exploitable for cancer treatment, which drives the need for tools and methods that identify therapeutic avenues. Here, we extend our gene-set scoring method singscore to investigate NK cell infiltration by applying RNA-seq analysis to samples from bulk tumors. Computational methods have been developed for the deconvolution of immune cell types within solid tumors. We have taken the NK cell gene signatures from several such tools, then curated the gene list using a comparative analysis of tumors and immune cell types..

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Grants

Awarded by National Health and Medical Research Council (NHMRC) of Australia


Awarded by NHMRC Early Career Fellowship


Awarded by National Breast Cancer Foundation (NBCF) Fellowship


Awarded by Priority-driven Collaborative Cancer Research Scheme


Awarded by Harry J Lloyd Charitable Trust


Awarded by NBCF Career Development Fellowship


Funding Acknowledgements

This work is supported in part by project grants from the National Health and Medical Research Council (NHMRC) of Australia (#1147528 to J. Cursons; #1128609 to M. J. Davis; #1124784, #1066770, #1057812, and #1124907 to N. D. Huntington; #1164081 to F. Hollande; and #1140406 to F. Souza-Fonseca-Guimaraes). F. Souza-Fonseca-Guimaraes was supported by NHMRC Early Career Fellowship (1088703), National Breast Cancer Foundation (NBCF) Fellowship (PF-15-008), and grant #1120725 awarded through the Priority-driven Collaborative Cancer Research Scheme and funded by Cure Cancer Australia with the assistance of Cancer Australia. A. Behren is the recipient of a Fellowship from the Victorian Government Department of Health and Human Services acting through the Victorian Cancer Agency. N. D. Huntington is an NHMRC CDF2 Fellow (1124788), a recipient of a Melanoma Research Grant from the Harry J Lloyd Charitable Trust, Melanoma Research Alliance Young Investigator Award, and a CLIP grant from Cancer Research Institute. M. J. Davis was supported by NBCF Career Development Fellowship ECF-14-043 and is the recipient of the Betty Smyth Centenary Fellowship in Bioinformatics. This study was made possible through Victorian State Government Operational Infrastructure Support and Australian Government NHMRC Independent Research Institute Infrastructure Support scheme. Results published here are based upon data generated by the TCGA Research Network: http://cancergenome.nih.gov/.