Analysis of immune subtypes across the epithelial-mesenchymal plasticity spectrum

被引:11
作者
Chakraborty, Priyanka [1 ]
Chen, Emily L. [2 ]
McMullen, Isabelle [2 ]
Armstrong, Andrew J. [2 ,3 ,4 ]
Jolly, Mohit Kumar [1 ]
Somarelli, Jason A. [2 ,3 ]
机构
[1] Indian Inst Sci, Ctr BioSyst Sci & Engn, Bangalore 560012, Karnataka, India
[2] Dept Med, Durham, NC 27701 USA
[3] Duke Canc Inst, Ctr Prostate & Urol Canc, Durham, NC USA
[4] Duke Univ, Dept Pharmacol & Canc Biol, Durham, NC USA
关键词
Gene expression signature; Immune subtypes; Tumor heterogeneity; Immune invasion; Hybrid epithelial/mesenchymal cells; CIRCULATING TUMOR-CELLS; METASTATIC COLONIZATION; CANCER CELLS; TRANSITION; EMT; CONTRIBUTES; EXPRESSION; PROSTATE; ESRP1; ADENOCARCINOMA;
D O I
10.1016/j.csbj.2021.06.023
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
Epithelial-mesenchymal plasticity plays a critical role in many solid tumor types as a mediator of metastatic dissemination and treatment resistance. In addition, there is also a growing appreciation that the epithelial/mesenchymal status of a tumor plays a role in immune evasion and immune suppression. A deeper understanding of the immunological features of different tumor types has been facilitated by the availability of large gene expression datasets and the development of methods to deconvolute bulk RNA-Seq data. These resources have generated powerful new ways of characterizing tumors, including classification of immune subtypes based on differential expression of immunological genes. In the present work, we combine scoring algorithms to quantify epithelial-mesenchymal plasticity with immune subtype analysis to understand the relationship between epithelial plasticity and immune subtype across cancers. We find heterogeneity of epithelial-mesenchymal transition (EMT) status both within and between cancer types, with greater heterogeneity in the expression of EMT-related factors than of MET-related factors. We also find that specific immune subtypes have associated EMT scores and differential expression of immune checkpoint markers. (C) 2021 The Author(s). Published by Elsevier B.V. on behalf of Research Network of Computational and Structural Biotechnology.
引用
收藏
页码:3842 / 3851
页数:10
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