Membrane protein-regulated networks across human cancers

Chun Yu Lin, Chia Hwa Lee, Yi Hsuan Chuang, Jung Yu Lee, Yi Yuan Chiu, Yan Hwa Wu Lee, Yuh Jyh Jong, Jenn Kang Hwang, Sing Han Huang, Li Ching Chen, Chih Hsiung Wu, Shih Hsin Tu, Yuan Soon Ho, Jinn Moon Yang

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3 Citations (Scopus)

Abstract

Alterations in membrane proteins (MPs) and their regulated pathways have been established as cancer hallmarks and extensively targeted in clinical applications. However, the analysis of MP-interacting proteins and downstream pathways across human malignancies remains challenging. Here, we present a systematically integrated method to generate a resource of cancer membrane protein-regulated networks (CaMPNets), containing 63,746 high-confidence protein–protein interactions (PPIs) for 1962 MPs, using expression profiles from 5922 tumors with overall survival outcomes across 15 human cancers. Comprehensive analysis of CaMPNets links MP partner communities and regulated pathways to provide MP-based gene sets for identifying prognostic biomarkers and druggable targets. For example, we identify CHRNA9 with 12 PPIs (e.g., ERBB2) can be a therapeutic target and find its anti-metastasis agent, bupropion, for treatment in nicotine-induced breast cancer. This resource is a study to systematically integrate MP interactions, genomics, and clinical outcomes for helping illuminate cancer-wide atlas and prognostic landscapes in tumor homo/heterogeneity.

Original languageEnglish
Article number3131
JournalNature Communications
Volume10
Issue number1
DOIs
Publication statusPublished - Dec 1 2019

ASJC Scopus subject areas

  • Chemistry(all)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Physics and Astronomy(all)

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    Lin, C. Y., Lee, C. H., Chuang, Y. H., Lee, J. Y., Chiu, Y. Y., Wu Lee, Y. H., Jong, Y. J., Hwang, J. K., Huang, S. H., Chen, L. C., Wu, C. H., Tu, S. H., Ho, Y. S., & Yang, J. M. (2019). Membrane protein-regulated networks across human cancers. Nature Communications, 10(1), [3131]. https://doi.org/10.1038/s41467-019-10920-8