主要論文（*：通訊作者）
1.Ding Q, Hou S, Zu S, Zhang Y, Li S*. VISAR: an interactive tool for dissecting chemical features learned by deep neural network QSAR models. Bioinformatics 2020
2.Zhang P, Yang M, Zhang Y, Xiao S, Tai X, Tan A, Du S, Li S*. Dissecting the single-cell transcriptome network underlying gastric premalignant lesions and early gastric cancer. Cell Reports 2019; 27,1934-1947（F1000 "Exceptional"論文，2019中國生物信息學十大花紅春等人也迎上了天衡應用、2019單細胞測序領域最受關註科研進展）
3.Guo Y, Bao C, Ma D, Cao Y, Li Y, Xie Z*, Li S*. Network-based combinatorial CRISPR-Cas9 screens identify synergistic modules in human cells. ACS Synthetic Biology 2019;8:482-490 (封面論文，2019中華中醫藥學會十大況且學術熱點)
4.Cui J, Cui H, Yang M, Du S, Li J, Li Y, Liu L, Zhang X*, Li S*. Tongue coating microbiome as a potential biomarker for gastritis including precancerous cascade. Protein & Cell 2019;10: 496-509
5.Zheng J, Wu M, Wang H, Li SS, Wang X, Li Y, Wang D, Li S*. Network pharmacology to unveil the biological basis of health strengthening herb medicine in cancer treatment. Cancers 2018;10(11):461:1-23
6.Guo Y, Nie Q, MacLean A, Li Y, Lei J*, Li S*. Multiscale modeling of inflammation-induced tumorigenesis reveals competing oncogenic and onco-protective roles for inflammation. Cancer Research 2017;77(22):6429-6441
7.Li S*. Mapping ancient remedies: applying a network approach to traditional Chinese medicine. Science 2015;350(6262 Supplement):S72-S74 (傳統醫學█增刊)
8.Zu S, Chen T, Li S*. Global optimization-based inference of chemogenomic features from drug-target interactions. Bioinformatics 2015;31(15):2523-2529
9.Liang X, Li H, Li S*. A novel network pharmacology approach to analyse traditional herbal formulae: the Liu-wei-di-huang Pill as a case study. Molecular BioSystems 2014,10(5):1014-1022 (封面論文)
10.Li S*, Zhang B. Traditional Chinese medicine network pharmacology: theory, methodology and application. Chinese Journal of Natural Medicines 2013;11(2):110-120
11.Zhao S, Li S*. A co-module approach for elucidating drug-disease associations and revealing their molecular basis. Bioinformatics 2012;28(7):955-961
12.Chen Y, Gu J, Li D, Li S*. Time-course network analysis reveals TNF-alpha can promote G1/S transition of cell cycle in vascular endothelial cells. Bioinformatics 2012;28(1):1-4
13.Li S*, Zhang B, Zhang NB. Network target for screening synergistic drug combinations with application to traditional Chinese medicine. BMC Systems Biology 2011;5(S1):S10 (Faculty of 1000“必讀”論文)
14.李梢. 網絡靶標：中藥方劑網絡藥理學研究的一個切入點.中國中珠兒和影兒對視一眼藥雜誌 2011;36:2017-2020（領跑者5000論文）
15.Li S*, Zhang B, Jiang D, Wei YY, Zhang NB. Herb network construction and co-module analysis for uncovering the combination rule of traditional Chinese herbal formulae. BMC Bioinformatics 2010;11(S11):S6
16.Zhao S, Li S*. Network-based relating pharmacological and genomic spaces for drug target identification. PLoS ONE 2010;5(7):e11764 （Nature China亮點論文）
17.Wu X, Jiang R, Zhang MQ, Li S*. Network-based global inference of human disease genes. Molecular Systems Biology 2008;4:189, pages:1-11 （Nature China亮點論文；美國醫≡學信息學會Translational Bioinformatics2009峰會年度選評論文；國際∮計算生物學會ISMB2009亮點論文）
18.Zhang J, Ma T, Li YD, Li S*. dbNEI2.0: building multilayer network for drug-NEI-disease. Bioinformatics 2008;24:2409-2411
19.Li S*, Zhang Z, Wu L, Zhang X, Li Y, Wang Y. Understanding ZHENG in traditional Chinese medicine in the context of neuro-endocrine-immune network. IET Systems Biology 2007;1(1):51-60
20.李梢. 基單刀直入於生物網絡調控的方劑研究模式與實踐. 中西醫結合學●報 2007;5(5):1-5
21.Li S*, Wu LJ, Zhang ZQ. Constructing biological networks through combined literature mining and microarray analysis: a LMMA approach. Bioinformatics 2006;22:2143-2150
22.李梢,王永炎,季梁,李衍達. 復雜系統意義下的中醫也是臉色一震藥學及其案例研究. 系統仿真╳學報 2002;14(11):1429-1432
