邮箱: lihong01@sinh.ac.cn lihong01@sibs.ac.cn
电话: +86-21-54920348
研究组主页: https://lihonglab.github.io/
所属部门: 计算生物学重点实验室
2021-至 今:中国科学院上海营养与健康研究所,研究员
2020-2021年:中国科学院-马普学会计算生物学伙伴研究所,研究员
2014-2019年:中国科学院上海生命科学研究院,副研究员
2013-2014年:中国科学院上海生命科学研究院,助理研究员
2010-2013年:美国系统生物学研究所,博士后
2005-2010年:中国科学院上海生命科学研究院,生物信息学博士
2001-2005年:中南大学,信息与计算科学学士
系统生物学
(1)单细胞和空间组学分析方法,应用于解析肿瘤和肝脏疾病的微环境,鉴定新细胞亚型和细胞状态改变的关键基因、分析细胞空间分布和相互作用。
(2)整合多模态数据的人工智能方法,应用于疾病标志物筛选、肿瘤个体化用药和计算病理研究。
(3)癌症基因组图谱和演化,研究癌症发生发展过程中基因组图谱的变化,重构癌症的进化路径,并寻找关键基因。
1. Chen X#, Yan X, Shen B, Wang H, Tang Z, Zang Y, Lin P, Zhang H, Li Y*, Li H*. Decomposing multi-scale dynamic regulation from single-cell multiomics with scMagnify. Nat Commun 2026. https://doi.org/10.1038/s41467-026-78441-9
2. Li J#, Lin P, Wang H, Tang Z, Yan X, Chen X, Yuan J, Chen W, Li H*. Pan-cancer analysis of spatial transcriptomics reveals heterogeneous tumor spatial microenvironment. Cell Rep Med 2026 May 19;7(5):102751.
3. Zhang Z#, Li H#*, Chen L#, Lu T, Shentu X, Liu Y, Tang Z, Ji S, Qiu Z, Zou Y, Wen H, Han J, Jiang Z, Fan J, Gao X, Li D, Mesropian A, Pinyol R, Llovet JM, Dong H, Ji Y*, Hui L*. Molecular insights into early malignant transition of hepatocellular carcinoma. Cancer Cell 2026 May 11;44(5):1012-1028.e9.
4. Feng F#, He T#, Lin P#, Hu J#, Shen B, Tang Z, Zhou J, Fan J, Hu B, Li H*. Computational framework for prioritizing candidate compounds overcoming the resistance of pancancer immunotherapy. Cell Rep Med 2025 Aug 19;6(8):102276.
5. Jing SY#, Wang HQ, Lin P, Yuan J, Tang ZX, Li H*. Quantifying and interpreting biologically meaningful spatial signatures within tumor microenvironments. NPJ Precis Oncol 2025 Mar 11;9(1):68.
6. Wang H#, Li J#, Jing S, Lin P, Qiu Y, Yan X, Yuan J, Tang Z, Li Y, Zhang H, Chen Y, Wang Z, Li H*. SOAPy: a Python package to dissect spatial architecture, dynamics, and communication. Genome Biol 2025 Mar 29;26(1):80.
7. Lin P#, Yan X, Jing S, Wu Y, Shan Y, Guo W, Gu J, Li Y, Zhang H, Li H*. Single-cell and spatially resolved transcriptomics for liver biology. Hepatology 2024 Sep 1;80(3):698-720. doi: 10.1097/HEP.0000000000000387.
8. Li L#, Cui L#, Lin P#, Liu Z, Bao S, Ma X, Nan H, Zhu W, Cen J, Mao Y, Ma X, Jiang L, Nie Y, Ginhoux F, Li Y*, Li H*, Hui L*. Kupffer-cell-derived IL-6 is repurposed for hepatocyte dedifferentiation via activating progenitor genes from injury-specific enhancers. Cell Stem Cell 2023, S1934-5909(23)00009-7.
9. Shen B#, Feng F#, Li K, Lin P, Ma L, Li H*. A systematic assessment of deep learning methods for drug response prediction: from in vitro to clinical applications. Brief Bioinform 2023, 24(1):bbac605.
10. Yang J#, Lin P#, Yang M#, Liu W, Fu X, Liu D, Tao L, Huo Y, Zhang J, Hua R, Zhang Z*, Li Y*, Wang L*, Xue J*, Li H*, Sun Y*. Integrated genomic and transcriptomic analysis reveals unique characteristics of hepatic metastases and pro-metastatic role of complement C1q in pancreatic ductal adenocarcinoma. Genome biology 2021, 22(1): 4.
11. Qiu Z#, Li H#, Zhang Z#, Zhu Z, He S, Wang X, Wang P, Qin J, Zhuang L, Wang W, Xie F, Gu Y, Zou K, Li C, Li C, Wang C, Cen J, Chen X, Shu Y, Zhang Z, Sun L, Min L, Fu Y, Huang X, Lv H, Zhou H, Ji Y, Zhang Z, Meng Z, Shi X, Zhang H*, Li Y*, Hui L*. A Pharmacogenomic Landscape in Human Liver Cancers. Cancer Cell 2019 Aug 12;36(2):179-193.e11.
12. Li W#, Yang L#, He Q, Hu C, Zhu L, Ma X, Ma X, Bao S, Li L, Chen Y, Deng X, Zhang X, Cen J, Zhang L, Wang Z, Xie WF, Li H*, Li Y*, Hui L*. A Homeostatic Arid1a-Dependent Permissive Chromatin State Licenses Hepatocyte Responsiveness to Liver-Injury-Associated YAP Signaling. Cell stem cell 2019 Jul 3;25(1):54-68.e5.