Education

B.Sc. Pharmacy, Fujian Medical University, 2013
M.Sc. Bioinformatics, Fujian Medical University, 2016
Ph.D. Bioinformatics, Tsinghua University, 2019

Professional Experience

Assistant Professor, School of Life Sciences, Xiamen University, 2019

Research Area
(1) Artificial intelligence-driven identification of cancer molecular biomarkers (diagnosis, prognosis, and drug efficacy prediction)
(2) Construction of multi-omics regulatory networks in the tumor microenvironment 

(3) Development of post-translationally modified omics data mining algorithms and functional characterizations

Selected Publications(* Corresponding author)：

1.Jiajing Xie^#, Yuhang Song^#, Hailong Zheng, Shijie Luo, Ying Chen, Chen Zhang, Rongshan Yu^*, Mengsha Tong^*. PathMethy: an interpretable AI framework for cancer origin tracing based on DNA methylation. Briefings in Bioinformatics, 2024 Sep 23;25(6):bbae497.
2. Mengsha Tong^#*, Yuxiang Lin^#, Wenxian Yang, Jinsheng Song, Zheyang Zhang, Jiajing Xie, Jingyi Tian, Shijie Luo, Chenyu Liang, Jialiang Huang^*, Rongshan Yu^*. Prioritizing prognostic-associated. subpopulations and individualized recurrence risk signatures from single-cell transcriptomes of colorectal cancer. Briefings in Bioinformatics, 2023 May 19;24(3):bbad078.
3.Mengsha Tong^#*; Shijie Luo; Lin Gu; Xinkang Wang; Zheyang Zhang; Chenyu Liang; Huaqiang Huang; Yuxiang Lin; Jialiang Huang^*; SIMarker: Cellular similarity detection and its application to diagnosis and prognosis of liver cancer, Computers in Biology and Medicine, 2024 Mar:171:108113.
4.Mengsha Tong^#, Zan Liu^#, Jiaao Li^#, Xin Wei, Wenhao Shi, Chenyu Liang, Chunyu Yu, Rongting Huang, Yuxiang Lin, Xinkang Wang, Shun Wang, Yi Wang, Jialiang Huang, Yini Wang, Tingting Li^*, Jun Qin^*, Dongdong Zhan^*, Zhi-Liang Ji^*. PhosMap: An ensemble bioinformatic platform to empower interactive analysis of quantitative phosphoproteomics. Computers in Biology and Medicine, 2024 May:174:108391.
5. Jiaao Li^#, Jinyi Tian^#, Yachen Liu, Zan Liu, Mengsha Tong^*. Personalized analysis of human cancer multi-omics for precision oncology. Computational and Structural Biotechnology Journal, 2024 May 10:23:2049-2056. (邀稿综述)
6.Jiajing Xie^#, Ying Chen^#, Shijie Luo^#, Wenxian Yang, Yuxiang Lin, Liansheng Wang, Xin Ding^* Mengsha Tong^*, Rongshan Yu^*. BPformer: Tracing Unknown Tumor Origins with a Biological Pathway-based Transformer Model. Cell reports Methods, 2024 Jun 17;4(6):100797.
7. Yachen Liu , Yalan Lin, Yuxiang Lin, Yujuan,Wu, Zheyang Zhang, Nuoqi Lin, Xianlong Wang, Mengsha Tong^*, Rongshan Yu^*. Application of individualized differential expression analysis in human cancer proteome. Briefings in Bioinformatics, 2022 Apr 2;bbac096.
8.Mengsha Tong^#; Chunyu Yu^#; Jinwen Shi^#; Wenwen Huang^#; Sai Ge^#; Mingwei Liu; Lei;Song; Dongdong Zhan; Xia Xia;Wanlin Liu; Jinwen Feng; Wenhao Shi;Jiafu Ji; Jing Gao; Tieliu Shi; Weimin Zhu;Chen Ding; Yi Wang; Fuchu He^*; Lin Shen^*; Tingting Li^*; Jun Qin^*; Phosphoproteomics Enables Molecular Subtyping and Nomination of Kinase Candidates for Individual Patients of Diffuse-Type Gastric Cancer, iScience, 2019, 22: 44–57.
9.Mengsha Tong^#; Chunyu Yu ^#; Dongdong Zhan; Ming Zhang; Bei Zhen; Weimin Zhu; Yi Wang; Congying Wu; Fuchu He^*; Jun Qin^*; Tingting Li^*; Molecular subtyping of cancer and nomination of kinase candidates for inhibition with phosphoproteomics: reanalysis of CPTAC ovarian cancer, EBioMedicine, 2018, 40 (2352-3964): 305-317.
10.Mengsha Tong^#; Weicheng Zheng^#; Hongdong Li; Xiangyu Li; Lu Ao; Yifeng Shen; Qirui Liang; Jing Li; Guini Hong; Haidan Yan; Hao Cai; Mengyao Li; Qingzhou Guan; Zheng Guo^*; Multi-omics landscapes of colorectal cancer subtypes discriminated by an individualized prognostic signature for 5-fluorouracil-based chemotherapy, Oncogenesis, 2016, 5(2157-9024).
11.Yifeng Shen^#; Mengsha Tong^#; Qirui Liang; Huaqin Sun; Weicheng Zheng; Lu Ao; Zheng Guo^*; Feifei She^*; Epigenomics alternations and dynamic transcriptional changes in responses to 5-fluorouracil stimulation reveal mechanisms of acquired drug resistance of colorectal cancer cells, The Pharmacogenomics Journal 2017, 18 (1470-269X): 23-28.
12.Siyuan You^#, Shuqin Li^#, Lingsu Zeng, Jinsheng Song, Zifeng Li, Weiyun Li, Hengxiao Ni, Xu Xiao, Wenbo Deng, Hongye Li, Wenbo Lin, Chenyu Liang, Yanfei Zheng, Shih-Chin Cheng, Nengming Xiao, Mengsha Tong, Rongshan Yu, Jialiang Huang, Hongling Huang, Hongzhi Xu, Jiahuai Han, Jianlin Ren and Kairui Mao.Treg-mregDC Lymphatic-localized Treg-mregDC crosstalk limits antigen trafficking and restrains anti-tumor immunity. Cancer Cell. 2024 Aug 12;42(8):1415-1433.e12.
13. GaiGai Guo, Zhouyong Gao, Mengsha Tong, Dongdong Zhan,Guangshun Wang, Yi Wang, Jun Qin^*. NQO1 is a determinant for cellular sensitivity to anti-tumor agent Napabucasin. American Journal of Cancer Research 2020;10(5):1442-1454