简历
2001-2005 中国科学技术大学，本科（化学物理）
2005-2011 芝加哥大学，博士（物理化学/生物物理）
2011-2016 加州理工学院，博士后（合成与系统生物学）
2017-至今 北京大学-清华生命科学联合中心，PI
2017-至今 北京大学定量生物学中心，助理教授、副教授、教授
研究方向：
定量单细胞生物学、系统生物学、合成生物学
研究方向
林一瀚课题组的研究聚焦在单细胞水平上定量解析人类发育、疾病及免疫等重要过程中的基因调控机制，并利用合成生物器件对这些过程实施精准干扰或控制。研究从以下几个方面展开：在单细胞水平上动态解析肿瘤及免疫细胞的状态异质性、表观机制对基因表达和细胞群体异质性的影响、转录因子动力学在信号传导及基因调控中的功能和设计原理、数据驱动的基因调控网络推断及构建，及新型合成生物学器件的设计和应用。
实验室致力于开展前沿的生命科学交叉研究，有机结合了包括系统生物学、合成生物学、定量单细胞分析、活细胞时序荧光成像、数学建模等研究方法。同时，为了引领单细胞研究领域，实验室正在研发高通量、高时空分辨率的单细胞分析工具，用于解析疾病过程中的基因调控网络，并为单细胞水平上药物筛选及大规模测试合成生物学器件等应用提供新平台。
代表性科研论文
1、Mingze Sun#, Di Zhang#*, Zhiyuan Li*, Yihan Lin*. Structure-aware deep learning enhances m6A prediction and reveals cell type-associated RNA structural signatures. PLOS Computational Biology, 2026, 22(8): e1014649.
2、Yongjie Lin, Xiangru Chen, Long Wu, Yutong Zhou, Yihan Lin*. Widespread transcriptional memory shapes heritable states and functional heterogeneity in cancer and stem cells. Cell Systems, 2026, 101621.
3、Chengzhi Song#, Liang Ma#, Lingfeng Xue, Yingfan Xu; Qihan Zhang; Yuxi Liu; Chen Song; Yihan Lin*. Navigating high-order protein fitness landscapes via deep learning on directed evolution trajectories. Proceedings of the National Academy of Sciences, 2026, 123(22).
4、Shan Jiang#, Yuxuan Song#, Yun Peng#, Ran Yan#, Yunze Niu#, Baoqiang Chen, Jiaxing Lin, Jilin Wu, Shixiang Wang, Yiqing Du, Caipeng Qin, Yihan Lin*, Tao Xu*. Patient-derived organoid-immune co-cultures integrated with multi-omics reveal immunotherapy resistance mechanisms in urothelial carcinoma. iMeta,2026.
5、Liang Ma, Yihan Lin*. Orthogonal RNA replication enables directed evolution and Darwinian adaptation in mammalian cells. Nature Chemical Biology, 2025, 21(3): 451-463.
6、Liang Ma#, Yuan Lin#, Siyu Ma, Kai Chen, Yihan Lin*. Engineering virus-like particles for safe and versatile modeling of SARS-CoV-2 host interaction and immune escape. Communications Biology, 2025, 8(1): 1322.
7、Jiaxing Lin#, Shan Jiang#, Baoqiang Chen#, Yiqing Du#, Caipeng Qin#, Yuxuan Song, Yun Peng, Mengting Ding, Jilin Wu, Yihan Lin*, Tao Xu*. Tertiary lymphoid structures are linked to enhanced antitumor immunity and better prognosis in muscle-invasive bladder cancer. Advanced Science, 2025,12(7): 2410998.
8、Shenqi Fan#, Liang Ma#*, Chengzhi Song, Xu Han, Bijunyao Zhong, Yihan Lin*. Promoter DNA methylation and transcription factor condensation are linked to transcriptional memory in mammalian cells. Cell Systems, 2024, 15(9): 808-823.e6.
9、Lingfeng Xue, Yan Wu, Yihan Lin*. Dissecting and improving gene regulatory network inference using single-cell transcriptome data. Genome Research, 2023, 33(9): 1609-1621.
10、Jianhan Zhang#, Xu Han#, Liang Ma, Shuhui Xu, Yihan Lin*. Deciphering a global source of non-genetic heterogeneity in cancer cells. Nucleic Acids Research, 2023, 51(17): 9019-9038.
11、Wen Huang, Wei Lin, Baoqiang Chen, Jianhan Zhang, Peifen Gao, Yingying Fan, Yihan Lin*, Ping Wei*. NFAT and NF-κB dynamically co-regulate TCR and CAR signaling responses in human T cells. Cell Reports, 2023, 42(7): 112663.
12、Jiegen Wu#, Baoqiang Chen#, Yadi Liu, Liang Ma, Wen Huang, Yihan Lin*. Modulating gene regulation function by chemically controlled transcription factor clustering. Nature Communications, 2022, 13(1): 2663.
13、Yan Wu#, Lingfeng Xue#, Wen Huang#, Minghua Deng, Yihan Lin*. Profiling transcription factor activity dynamics using intronic reads in time-series transcriptome data. PLOS Computational Biology, 2022, 18(1): e1009762.
14、Liang Ma, Zeyue Gao, Jiegen Wu, Bijunyao Zhong, Yuchen Xie, Wen Huang, Yihan Lin*. Co-condensation between transcription factor and coactivator p300 modulates transcriptional bursting kinetics. Molecular Cell, 2021, 81(8): 1682-1697.e7.
15、Yan Wu, Jiaqi Wu, Minghua Deng, Yihan Lin*. Yeast cell fate control by temporal redundancy modulation of transcription factor paralogs. Nature Communications, 2021, 12(1): 3145.
16、Jiegen Wu, Xu Han, Haotian Zhai, Tingyu Yang, Yihan Lin*. Evidence for rate-dependent filtering of global extrinsic noise by biochemical reactions in mammalian cells. Molecular Systems Biology, 2020, 16(5): e9335.
17、Jianhan Zhang#, Xu Han#, Yihan Lin*. Dissecting the regulation and function of ATP at the single-cell level. PLOS Biology, 2018, 16(12): e3000095.
