Shirui Bian, Zezhou Wang, Siyang Leng, Wei Lin, and Jifan Shi*, Utilizing causal network markers to identify tipping points ahead of critical transition, Advanced Science, [2025], 12(42): e15732.

Bo-Wei Qin, Wenbo Sheng, Xuzhe Qian, Juergen Kurths, Alan Hastings, Ying-Cheng Lai*, and Wei Lin*. Reordered hierarchical complexity in ecosystems with delayed interactions, PNAS Nexus, [2025], 4(7): pgaf214.

Bangfeng Wang*, Yangcheng Liu, Shunji Li, Ying Zhang, Dongjuan Chen, Mingxuan Li, Zetai Liu, Peng Chen, Yiwei Li*, Xiaojun Feng*, Bi-Feng Liu*, and Wei Lin*. Music-box: Controlling microfluidic flow with customized melodies for point-of-care testing, Biosensors and Bioelectronics, [2025], 287: 117653.

Shirui Bian, Ruisong Zhou, Wei Lin*, and Chunhe Li*. Protocol to quantify energy landscape of high-dimensional oscillatory systems using diffusion decomposition, STAR Protocols, [2025], 6(3): 103922.

Shirui Bian, Ruisong Zhou, Wei Lin*, and Chunhe Li*. Quantifying energy landscape of high-dimensional oscillatory systems by diffusion decomposition, Cell Reports Physical Sciences, [2025], 6(2): 102405.

Weichen Fu, Zhuchun Li*, Wei Lin, and Xiaoxue Zhao. The role of higher-order self-dynamics in neural dynamical networks: Preserving memory capacity and enhancing retrieval basin, SIAM Journal on Applied Mathematics, [2025], 85(4): 1834-1855.

Huanfei Ma and Wei Lin*, Iteratively adaptive identification of parameters solely using short-term data of transient dynamics, SIAM Journal on Applied Mathematics, [2025], 85(1): 393-411.

Shijie Zhou*, Luan Yang, Xuzhe Qian, and Wei Lin, A geometric approach to stability analysis of asymmetric or random delayed network dynamics, IEEE Transactions on Automatic Control, [2025], 70(6): 4116-4123.

Xin Jin, Daniel W.C. Ho, Wei Lin*, and Yang Tang, Adaptive event-triggered attitude consensus with prescribed-time convergence, IEEE Transactions on Circuits and Systems-I: Regular Papers, [2025], 72(12): 8260-8272.

Xin Jin, Yang Tang*, Yang Shi, Xiaotai Wu, and Wei Lin, Event-triggered attitude consensus of multiple rigid body systems with prescribed performance, IEEE Transactions on Cybernetics, [2025], 55(1): 307-320.

Changqian Rao, David Waxman, Wei Lin, and Zhuoyi Song*, Exact first-passage time distributions from time-dependent solutions of the chemical master equation. II. Nonlinear networks with bimolecular reactions and arbitrary initial conditions, Journal of Chemical Physics, [2025], 162(22): 224105.

Changqian Rao, David Waxman, Wei Lin, and Zhuoyi Song*, Exact first-passage time distributions from time-dependent solutions of the chemical master equation. I. Nonlinear networks with bimolecular reactions and Poisson-product initial conditions, Journal of Chemical Physics, [2025], 162(22): 224104.

Yecheng Tan, Ai Wang, Zezhou Wang, Wei Lin*, Yan Yan*, Qing Nie*, and Jifan Shi*, Transfer learning of multicellular organization via single-cell and spatial transcriptomics, PLoS Computational Biology, [2025], 21(4): e1012991.

Xiaoyu Zhang, Pengcheng Yang, Jiawei Feng, Kang Wen, Gang Yan, Qiang Luo, Wei Lin, and Xin Lu*, Network structure governs Drosophila brain functionality, Fundamental Research, [2025], published online.

Luan Yang, Jingdong Zhang, Shijie Zhou*, and Wei Lin*, Advancements in mathematical approaches for deciphering deep brain stimulation: A systematic review, CSIAM Transactions on Life Sciences, [2025], 1(1): 93-133.

Chen Yiqiao, Jifan Shi*, Siyang Leng, Kolmogorov-Arnold Autoencoder for Conditional Mutual Information Estimation (In Chinese), Journal of Fudan University (Natural Science), [2025],64(4): 2025.04.005.

Shengyu Wu, Jiaqi Dong, Jifan Shi, Xiaoxian Qu, Yirong Bao, Xiaoyuan Mao, Mu Lv, Xuan Chen, and Hao Ying*, Machine Learning Prediction of Short Cervix in Mid-Pregnancy Based on Multimodal Data from the First-trimester Screening Period: An Observational Study in a High-Risk Population, Biomedicines, [2025], 13(9): 2057.

Ren Cao, Jintong Zhao, Chun Guan, Huanfei Ma*, Jifan Shi*, and Siyang Leng*. Reservoir cross mapping as a nonlinear framework for detecting dynamical causality. Cell Reports Physical Science, [2025], 6(7): 102683.

Songwei Ai, Yiwei Zhou, Wenkui Zou, Emeli Chatterjee, Guoping Li, Jifan Shi*, Junjie Xiao*, and Juan Zhao*. diffMIN: Reconstructing sample-specific differential gene regulatory networks based on mutual information. IEEE Transactions on Computational Biology and Bioinformatics, [2025], 22(4): 1935-1946.

Mingzhi Liu, Yipeng Wang, Guoqiang Zhong, Yongxin Liu, Xiaoqing Liu, Jifan Shi, Yangli Che, and Rui Bao*. A deep learning approach of artificial neural network with attention mechanism to predicting marine biogeochemistry data. Journal of Geophysical Research-Biogeosciences, [2025], 130(3): e2024JG008386.

Yuyang Ye, Yunzhang Li*, Shanjian Tang, Fractional backward stochastic partial differential equations with applications to stochastic optimal control of partially observed systems driven by Lévy processes, SIAM Journal on Control and Optimization, [2025], 63 (2): 1314-1347.

Miaomiao Li, Yunzhang Li, Bin Pei*, Yong Xu, Averaging principle for semilinear slow-fast rough partial differential equations, Stochastic Processes and their Applications, [2025], 188:104683.

Bin Pei, Lifang Feng, Yunzhang Li, Yong Xu*, Non-Markovian dynamics: the memory-dependent probability density evolution equations, Nonlinear Dynamics, [2025], 113: 12589-12607.

Yi Wu, Wei Yang, Yuezhong Tang, Zenghui Xi, Tangyun Xu, Li Wan, Xuzhe Qian, Benyao You, Jiamin Yao, Yucheng Ji*, Yi Sun, Bo-Wei Qin, Wei Lin, Accumulated Temperature Effect on Rhythmic Urban Electric Load, 2025 7th Asia Energy and Electrical Engineering Symposium (AEEES), [2025].

Ningyu Xu, Qi Zhang, Chao Due, Qiang Luo, Xipeng Qiu*, Xuanjing Huang*, Menghan Zhang*. Revealing emergent human-like conceptual representations from language prediction, PNAS, [2025], 122(44): e2512514122.

Sizhe Yang, Tingting Ye, Shengbo Bi, Li Jin*, Yongyan Zheng*, Menghan Zhang*. Bayesian parametric estimation shows the effects of social prestige and bilingualism on reshaping language competition. Proceedings of the Royal Society B:  Biological Sciences, [2025], 292(2057): 20251451.

Hongye Jin, Yuxin Tao, Chengkun Yang, Sizhe Yang, Wenjing Sun, Linguistic Silk Road Research Consortium, Dan Xu*, Menghan Zhang*. Disentangling complex language contact and admixture in the broad Gansu-Qinghai region, Fundamental Research, [2025], published online.

Zhiheng Xu, Liwen Li, Xining Liu, Xiaoniu Liang, Mindi Yang, Yi Chen, Xixi Han, Jian Wang, Yilin Tang*, Menghan Zhang*, Jianjun Wu*, Evaluating the Clinical Utility of a Machine Learning Model for Diagnosing Parkinson’s Disease Using Acoustic Parameters, Journal of Voice, [2025], published online.

Shijie Zhou, Hongyinping Feng, and Zhiqiang Wang*, Stability analysis for 1-D wave equation with delayed feedback control, Journal of Differential Equations, [2025], 430:113204.

Haixin Zhong, Haoyu Wang, Wei P. Dai, Yuchao Huang, Mingyi Huang, Rubin Wang, Anna Wang Roe and Yuguo Yu*, Emergent Orientation Maps-Mechanisms, Coding Efficiency, and Robustness, The thirteenth International Conference on Learning Representations (ICLR 2025), [2025].

Xiang Zhang, Tianze Ling, Zhi Jin, Sheng Xu, Zhiqiang Gao, Boyan Sun, Zijie Qiu, Jiaqi Wei, Nanqing Dong, Guangshuai Wang, Guibin Wang, Leyuan Li, Muhammad Abdul-Mageed, Laks V. S. Lakshmanan, Fuchu He, Wanli Ouyang*, Cheng Chang* and Siqi Sun*, π-PrimeNovo: an accurate and efficient non-autoregressive deep learning model for de novo peptide sequencing. Nature Communications, [2025], 16: 267.

Liu Wang, Jiahao Xie, Tao Gong, Hao Wu, Yifan Tu, Xin Peng, Sitong Shang, Xinyu Jia, Haiyun Ma, Jian Zou, Sheng Xu, Xin Zheng, Dong Zhang, Yang Liu, Chong Zhang, Yongbo Luo, Zirui Huang, Bin Shao, Binwu Ying, Yu Cheng, Yingqiang Guo, Ying Lai, Dingming Huang, Jianquan Liu, Yuquan Wei, Siqi Sun*, Xuedong Zhou* and Zhaoming Su*. Cryo-EM reveals mechanisms of natural RNA multivalency. Science, [2025], 388(6746): 545-550.