1. Membrane protein-regulated networks across human cancers.
- Author
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Lin CY, Lee CH, Chuang YH, Lee JY, Chiu YY, Wu Lee YH, Jong YJ, Hwang JK, Huang SH, Chen LC, Wu CH, Tu SH, Ho YS, and Yang JM
- Subjects
- Animals, Antineoplastic Agents pharmacology, Antineoplastic Agents therapeutic use, Biomarkers, Tumor antagonists & inhibitors, Biomarkers, Tumor metabolism, Bupropion pharmacology, Bupropion therapeutic use, Cell Line, Tumor, Datasets as Topic, Female, Gene Expression Profiling, Gene Expression Regulation, Neoplastic drug effects, Humans, Kaplan-Meier Estimate, Mice, Neoplasms drug therapy, Neoplasms mortality, Nicotinic Antagonists pharmacology, Nicotinic Antagonists therapeutic use, Prognosis, Protein Interaction Mapping methods, Protein Interaction Maps drug effects, Protein Interaction Maps genetics, Receptors, Nicotinic metabolism, Xenograft Model Antitumor Assays, Biomarkers, Tumor genetics, Gene Regulatory Networks, Neoplasms genetics, Receptors, Nicotinic genetics
- 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.
- Published
- 2019
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