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Updated: Oct 25, 2025

A Multiplexed Luciferase-based Screening Platform for Interrogating Cancer-associated Signal Transduction in Cultured Cells
Published on: July 3, 2013
A proteomic and phosphoproteomic landscape of KRAS mutant cancers identifies combination therapies
Zhiwei Liu1, Yingluo Liu1, Lili Qian2
1State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai, China; University of Chinese Academy of Sciences, Beijing, China.
Abstract:
KRAS mutant cancer, characterized by the activation of a plethora of phosphorylation signaling pathways, remains a major challenge for cancer therapy. Despite recent advancements, a comprehensive profile of the proteome and phosphoproteome is lacking. This study provides a proteomic and phosphoproteomic landscape of 43 KRAS mutant cancer cell lines across different tissue origins. By integrating transcriptomics, proteomics, and phosphoproteomics, we identify three subsets with distinct biological, clinical, and therapeutic characteristics. The integrative analysis of phosphoproteome and drug sensitivity information facilitates the identification of a set of drug combinations with therapeutic potentials. Among them, we demonstrate that the combination of DOT1L and SHP2 inhibitors is an effective treatment specific for subset 2 of KRAS mutant cancers, corresponding to a set of TCGA clinical tumors with the poorest prognosis. Together, this study provides a resource to better understand KRAS mutant cancer heterogeneity and identify new therapeutic possibilities.
Insights
This study maps KRAS mutant cancers, revealing three distinct subtypes. A combination of DOT1L and SHP2 inhibitors shows promise for treating a subset with poor prognosis.
Area of Science:
- Oncology
- Molecular Biology
- Proteomics
Background:
- KRAS-mutant cancers present therapeutic challenges due to complex phosphorylation signaling.
- A comprehensive proteomic and phosphoproteomic profile of these cancers is currently lacking.
Purpose of the Study:
- To create a proteomic and phosphoproteomic landscape of KRAS-mutant cancer cell lines.
- To identify distinct cancer subsets and potential therapeutic strategies through integrative analysis.
Main Methods:
- Proteomic and phosphoproteomic profiling of 43 KRAS-mutant cancer cell lines.
- Integration of transcriptomics, proteomics, and phosphoproteomics data.
- Analysis of drug sensitivity in relation to phosphoproteome data.
Main Results:
- Identification of three distinct subsets of KRAS-mutant cancers with unique characteristics.
- Discovery of potential drug combinations by integrating phosphoproteome and drug sensitivity data.
- Validation of DOT1L and SHP2 inhibitor combination therapy for a specific subset (subset 2) linked to poor prognosis.
Conclusions:
- This study provides a valuable resource for understanding KRAS-mutant cancer heterogeneity.
- The identified DOT1L and SHP2 inhibitor combination offers a targeted therapeutic strategy for a subset of KRAS-mutant cancers.
- Findings pave the way for developing novel therapeutic approaches for challenging KRAS-driven malignancies.
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