Publications – Xu-Wen Wang

* Corresponding author, # co-first author

Identifying keystone species in microbial communities using deep learning
Wang, Xu-Wen, Sun, Zheng, Jia, Huijue, Michel-Mata, Sebastian, Angulo, Marco Tulio, Dai, Lei, He, Xuesong, Weiss, Scott T, Liu, Yang-Yu
Nature Ecology & Evolution
Data-driven prediction of colonization outcomes for complex microbial communities
Wu, Lu^#, Wang, Xu-Wen^#, Tao, Zining, Wang, Tong, Zuo, Wenlong, Zeng, Yu, Liu, Yang-Yu, Dai, Lei
Nature Communications
Stability of ecological systems: A theoretical review
Chen, Can, Wang, Xu-Wen, Liu, Yang-Yu
Physics Reports

Predicting metabolomic profiles from microbial composition through neural ordinary differential equations
Wang, Tong, Wang, Xu-Wen, Lee-Sarwar, Kathleen A, Litonjua, Augusto A, Weiss, Scott T, Sun, Yizhou, Maslov, Sergei, Liu, Yang-Yu
Nature Machine Intelligence
Ecological dynamics imposes fundamental challenges in community-based microbial source tracking
Wang, Xu-Wen, Wu, Lu, Dai, Lei, Yin, Xiaole, Zhang, Tong, Weiss, Scott T, Liu, Yang-Yu
iMeta
Origins of scaling laws in microbial dynamics
Wang, Xu-Wen, Liu, Yang-Yu
Physical Review Research
Benchmarking omics-based prediction of asthma development in children
Wang, Xu-Wen, Wang, Tong, Schaub, Darius P, Chen, Can, Sun, Zheng, Ke, Shanlin, Hecker, Julian, Maaser-Hecker, Anna, Zeleznik, Oana A, Zeleznik, Roman, and others
Respiratory Research
Nutritional redundancy in the human diet and its application in phenotype association studies
Wang, Xu-Wen, Hu, Yang, Menichetti, Giulia, Grodstein, Francine, Bhupathiraju, Shilpa N, Sun, Qi, Zhang, Xuehong, Hu, Frank B, Weiss, Scott T, Liu, Yang-Yu
Nature Communications

A statistical physics approach for disease module detection
Wang, Xu-Wen, Qiao, Dandi, Cho, Michael H, DeMeo, Dawn L, Silverman, Edwin K, Liu, Yang-Yu
Genome Research
Predicting microbiome compositions from species assemblages through deep learning
Michel-Mata, Sebastian, Wang, Xu-Wen, Liu, Yang-Yu, Angulo, Marco Tulio
iMeta
Association Rule Mining of the Human Gut Microbiome
Zhang, Yiyan, Ke, Shanlin, Wang, Xu-Wen, Liu, Yang-Yu
bioRxiv

Characterizing scaling laws in gut microbial dynamics from time series data: caution is warranted
Wang, Xu-Wen, Liu, Yang-Yu
bioRxiv
Integrating gut microbiome and host immune markers to understand the pathogenesis of Clostridioides difficile infection
Ke, Shanlin, Pollock, Nira R, Wang, Xu-Wen, Chen, Xinhua, Daugherty, Kaitlyn, Lin, Qianyun, Xu, Hua, Garey, Kevin W, Gonzales-Luna, Anne J, Kelly, Ciarán P, and others
Gut Microbes

Link prediction through deep generative model
Wang, Xu-Wen, Chen, Yize, Liu, Yang-Yu
Iscience
Deciphering Functional Redundancy in the Human Microbiome
Tian, Liang, Wang, Xu-Wen, Wu, Ang-Kun, Fan, Yuhang, Friedman, Jonathan, Dahlin, Amber, Waldor, Matthew K, Weinstock, George, Weiss, Scott T, Liu, Yang-Yu
Nature Communications
Comparative study of classifiers for human microbiome data
Wang, Xu-Wen, Liu, Yang-Yu
Medicine in Microecology
Structural feedback in the control of complex networks
Nie, Sen, Stanley, H Eugene, Chen, Shi-Ming, Wang, Bing-Hong, Wang, Xu-Wen^#
Europhysics Letters

Control energy of complex networks towards distinct mixture states
Nie, Sen, Stanley, H Eugene, Chen, Shi-Ming, Wang, Bing-Hong, Wang, Xu-Wen^*
Scientific Reports
The influence of panic on the efficiency of escape
Shen, Jia-Quan and Wang, Xu-Wen^* and Jiang, Luo-Luo
Physica A: Statistical Mechanics and its Applications

Role of delay-based reward in the spatial cooperation
Wang, Xu-Wen, Nie, Sen, Luo-Luo, Wang, Bing-Hong, Chen, Shi-Ming
Physica A: Statistical Mechanics and its Applications

Cooperation in spatial evolutionary games with historical payoffs
Wang, Xu-Wen, Nie, Sen, Jiang, Luo-Luo, Wang, Bing-Hong, Chen, Shi-Ming
Physics Letters A
Promoting cooperation through fast response to defection in spatial games
Wang, Xu-Wen, Jiang, Luo-Luo, Nie, Sen, Chen, Shi-Ming, Wang, Bing-Hong
New Journal of Physics
Cooperation transition of spatial public goods games
Wang, Xu-Wen, Nie, Sen, Jiang, Luo-Luo, Wang, Bing-Hong
Journal of Statistical Mechanics: Theory and Experiment
Effect of correlations on controllability transition in network control
Nie, Sen, Wang, Xu-Wen, Wang, Bing-Hong, Jiang, Luo-Luo
Scientific Reports

Effect of degree correlation on exact controllability of multiplex networks
Nie, Sen, Wang, Xu-Wen^*, Wang, Bing-Hong
Physica A: Statistical Mechanics and its Applications
Controlling complex networks with conformity behavior
Wang, Xu-Wen, Nie, Sen, Wang, Wen-Xu, Wang, Bing-Hong
Europhysics Letters
Dependency links can hinder the evolution of cooperation in the prisoner’s dilemma game on lattices and networks
Wang, Xu-Wen, Nie, Sen, Wang, Bing-Hong
PLoS One
Impact of keeping silence on spatial reciprocity in spatial games
Wang, Xu-Wen, Wang, Zheng, Nie, Sen, Jiang, Luo-Luo, Wang, Bing-Hong
Applied Mathematics and Computation

Effects of aspiration-induced adaptation and migration on the evolution of cooperation
Peng, Yu, Wang, Xu-Wen^*, Lu, Qian, Zeng, Qin-Ke, Wang, Bing-Hong
International Journal of Modern Physics C
Robustness of controllability for networks based on edge-attack
Nie, Sen, Wang, Xu-Wen^*, Zhang, Hai-Feng, Li, Qi-Lang, Wang, Bing-Hong
PLoS One