This paper presents a data-driven drug repositioning framework that identifies CVL218, a PARP1 inhibitor, as a potential therapeutic for COVID-19 through in silico and experimental validation.

Signal Transduction and Targeted Therapy · Apr 24, 2021Peer-reviewedSystems Biology

Optimization of Spectral Library Size Improves DIA-MS Proteome Coverage

Weigang Ge, Xiao Liang, Fangfei Zhang, Luang Xu, Nan Xiang, Rui Sun, Wei Liu, Zhangzhi Xue, Xiao Yi, Bo Wang, Jiang Zhu, Cong Lu, Xiaolu Zhan, Lirong Chen, Yan Wu, , Tiannan Guo

This paper presents a computational strategy to optimize spectral library size for DIA-MS data, improving peptide and protein identification rates in colorectal and carcinoma samples.

bioRxiv · Nov 24, 2020 · PreprintBioinformatics

DPHL: A pan-human protein mass spectrometry library for robust biomarker discovery using Data-Independent Acquisition and Parallel Reaction Monitoring

Tiansheng Zhu, Yi Zhu, Yue Xuan, Huanhuan Gao, Xue Cai, Sander R. Piersma, Thang V. Pham, Tim Schelfhorst, Richard R. de Haas, Irene V. Bijnsdorp, Rui Sun, Liang Yue, Guan Ruan, Qiushi Zhang, Mo Hu, , Tiannan Guo

The paper introduces DPHL, a pan-human protein mass spectrometry library built using DIA and PRM, and demonstrates its utility in identifying differentially expressed proteins in prostate cancer and DLBCL.

Genomics Proteomics & Bioinformatics · Apr 1, 2020Peer-reviewedBioinformatics