Web Resources for Mass Spectrometry-based Proteomics. - Tao Chen 005; Jie Zhao; Jie Ma; Yunping Zhu (Genom. Proteom. Bioinform., 2015)

MRUniNovo: an efficient tool for de novo peptide sequencing utilizing the hadoop distributed computing framework. - Chuang Li 004; Tao Chen 005; Qiang He 001; Yunping Zhu; Kenli Li 001 (Bioinform., 2017)

LiverWiki: a wiki-based database for human liver. - Tao Chen 005; Mansheng Li; Qiang He 001; Lei Zou 001; Youhuan Li; Cheng Chang; Dongyan Zhao 001; Yunping Zhu (BMC Bioinform., 2017)

A Complete CPU-FPGA Architecture for Protein Identification with Tandem Mass Spectrometry. - Moucheng Yang; Tao Chen 005; Xuegong Zhou; Liang Zhao; Yunping Zhu; Lingli Wang (FPT, 2019)

SW-Tandem: a highly efficient tool for large-scale peptide identification with parallel spectrum dot product on Sunway TaihuLight. - Chuang Li 004; Kenli Li 001; Tao Chen 005; Yunping Zhu; Qiang He 001 (Bioinform., 2019)

iProX: an integrated proteome resource. - Jie Ma; Tao Chen 005; Songfeng Wu; Chunyuan Yang; Mingze Bai; Kunxian Shu; Kenli Li 001; Guoqing Zhang 006; Zhong Jin; Fuchu He; Henning Hermjakob; Yunping Zhu (Nucleic Acids Res., 2019)

iProX in 2021: connecting proteomics data sharing with big data. - Tao Chen 005; Jie Ma; Yi Liu; Zhiguang Chen 001; Nong Xiao 001; Yutong Lu; Yinjin Fu; Chunyuan Yang; Mansheng Li; Songfeng Wu; Xue Wang; Dongsheng Li; et al. (Nucleic Acids Res., 2022)

MulNet: a scalable framework for reconstructing intra- and intercellular signaling networks from bulk and single-cell RNA-seq data. - Mingfei Han 001; Xiaoqing Chen; Xiao Li; Jie Ma; Tao Chen 005; Chunyuan Yang; Juan Wang; Yingxing Li; Wenting Guo; Yunping Zhu (Briefings Bioinform., 2025)