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Green Fluorescent Protein-based Expression Screening of Membrane Proteins in Escherichia coli
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Membrane protein-regulated networks across human cancers
Chun-Yu Lin1,2, Chia-Hwa Lee3,4,5, Yi-Hsuan Chuang1
1Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsinchu, 300, Taiwan.
Nature Communications
|July 18, 2019
Summary
This study introduces CaMPNets, a resource detailing 63,746 protein-protein interactions for 1962 membrane proteins across 15 cancers. It aids in discovering prognostic biomarkers and therapeutic targets by linking membrane protein networks to clinical outcomes.
Area of Science:
- Oncology
- Proteomics
- Bioinformatics
Background:
- Membrane proteins (MPs) and their pathways are key cancer hallmarks, but analyzing their interactions and downstream effects in malignancies is difficult.
- Understanding these interactions is crucial for identifying new cancer biomarkers and therapeutic targets.
Purpose of the Study:
- To develop a systematically integrated method for generating a comprehensive resource of cancer membrane protein-regulated networks (CaMPNets).
- To link membrane protein interactions, genomics, and clinical outcomes to illuminate cancer-wide landscapes and prognostic heterogeneity.
Main Methods:
- Integrated analysis of expression profiles from 5922 tumors across 15 human cancers.
- Generated a resource of 63,746 high-confidence protein-protein interactions (PPIs) for 1962 membrane proteins (MPs).
- Analyzed CaMPNets to link MP partner communities and pathways for biomarker and target identification.
Main Results:
- The CaMPNets resource contains 63,746 high-confidence PPIs for 1962 MPs across 15 cancer types.
- Comprehensive analysis identified MP-based gene sets linked to prognostic biomarkers and druggable targets.
- Identified CHRNA9 as a potential therapeutic target with bupropion as an anti-metastasis agent for nicotine-induced breast cancer.
Conclusions:
- CaMPNets provides a valuable resource for systematically integrating MP interactions, genomics, and clinical data in cancer research.
- This resource facilitates the discovery of novel prognostic biomarkers and therapeutic strategies by illuminating cancer-wide networks and tumor heterogeneity.
- The study highlights the potential of targeting specific MPs, like CHRNA9, and repurposing existing drugs, such as bupropion, for cancer treatment.
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