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 Huangq, Li-Ching Chen, Chih-Hsiung Wu, Shih-Hsin Tu, Yuan-Soon Ho*, Jinn-Moon Yang*

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

44 Scopus citations

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
Pages (from-to)1-17
Number of pages17
JournalNature Communications
Volume10
DOIs
StatePublished - 16 Jul 2019

Keywords

  • NICOTINIC ACETYLCHOLINE-RECEPTOR
  • WEB SERVER
  • ACTIVATION
  • DATABASE
  • BINDING
  • GENES
  • ANNOTATION
  • PREDICTION
  • PHENOTYPE
  • DISCOVERY

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