The OncoPPi network of cancer-focused protein–protein interactions to inform biological insights and therapeutic strategies

Zenggang Li, Andrei A. Ivanov, Rina Su, Valentina Gonzalez-Pecchi, Qi Qi, Songlin Liu, Philip Webber, Elizabeth McMillan, Lauren Rusnak, Cau Pham, Xiaoqian Chen, Xiulei Mo, Brian Revennaugh, Wei Zhou, Adam Marcus, Sahar Harati, Xiang Chen, Margaret A. Johns, Michael A. White, Carlos S. Moreno, Lee A. D. Cooper, Yuhong Du, Fadlo R. Khuri () and Haian Fu ()
Additional contact information
Zenggang Li: Emory University
Andrei A. Ivanov: Emory University
Rina Su: Emory University
Valentina Gonzalez-Pecchi: Emory University
Qi Qi: Emory University
Songlin Liu: Emory University
Philip Webber: Emory University
Elizabeth McMillan: University of Texas Southwestern Medical Center
Lauren Rusnak: Emory University
Cau Pham: Emory University
Xiaoqian Chen: Emory University
Xiulei Mo: Emory University
Brian Revennaugh: Emory University
Wei Zhou: Emory University
Adam Marcus: Emory University
Sahar Harati: Emory University School of Medicine
Xiang Chen: Xiangya Hospital, Central South University
Margaret A. Johns: Emory University
Michael A. White: University of Texas Southwestern Medical Center
Carlos S. Moreno: Winship Cancer Institute, Emory University
Lee A. D. Cooper: Winship Cancer Institute, Emory University
Yuhong Du: Emory University
Fadlo R. Khuri: Emory University
Haian Fu: Emory University

Nature Communications, 2017, vol. 8, issue 1, 1-14

Abstract: Abstract As genomics advances reveal the cancer gene landscape, a daunting task is to understand how these genes contribute to dysregulated oncogenic pathways. Integration of cancer genes into networks offers opportunities to reveal protein–protein interactions (PPIs) with functional and therapeutic significance. Here, we report the generation of a cancer-focused PPI network, termed OncoPPi, and identification of >260 cancer-associated PPIs not in other large-scale interactomes. PPI hubs reveal new regulatory mechanisms for cancer genes like MYC, STK11, RASSF1 and CDK4. As example, the NSD3 (WHSC1L1)–MYC interaction suggests a new mechanism for NSD3/BRD4 chromatin complex regulation of MYC-driven tumours. Association of undruggable tumour suppressors with drug targets informs therapeutic options. Based on OncoPPi-derived STK11-CDK4 connectivity, we observe enhanced sensitivity of STK11-silenced lung cancer cells to the FDA-approved CDK4 inhibitor palbociclib. OncoPPi is a focused PPI resource that links cancer genes into a signalling network for discovery of PPI targets and network-implicated tumour vulnerabilities for therapeutic interrogation.

Date: 2017
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DOI: 10.1038/ncomms14356

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