Advancing functional and translational microbiome research using meta-omics approaches von Zhang, Xu, Li, Leyuan, Butcher, James, Stintzi, Alain, Figeys, Daniel

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Metaproteomics reveals associations between microbiome and intestinal extracellular vesicle proteins in pediatric inflammatory bowel disease von Zhang, Xu, Deeke, Shelley A., Ning, Zhibin, Starr, Amanda E., Butcher, James, Li, Jennifer, Mayne, Janice, Cheng, Kai, Liao, Bo, Li, Leyuan, Singleton, Ruth, Mack, David, Stintzi, Alain, Figeys, Daniel

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An in vitro model maintaining taxon-specific functional activities of the gut microbiome von Li, Leyuan, Abou-Samra, Elias, Ning, Zhibin, Zhang, Xu, Mayne, Janice, Wang, Janet, Cheng, Kai, Walker, Krystal, Stintzi, Alain, Figeys, Daniel

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RapidAIM: a culture- and metaproteomics-based Rapid Assay of Individual Microbiome responses to drugs von Li, Leyuan, Ning, Zhibin, Zhang, Xu, Mayne, Janice, Cheng, Kai, Stintzi, Alain, Figeys, Daniel

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MetaLab: an automated pipeline for metaproteomic data analysis von Cheng, Kai, Ning, Zhibin, Zhang, Xu, Li, Leyuan, Liao, Bo, Mayne, Janice, Stintzi, Alain, Figeys, Daniel

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All-natural 2D nanofluidics as highly-efficient osmotic energy generators von Tang, Jiadong, Wang, Yun, Yang, Hongyang, Zhang, Qianqian, Wang, Ce, Li, Leyuan, Zheng, Zilong, Jin, Yuhong, Wang, Hao, Gu, Yifan, Zuo, Tieyong

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Revealing proteome-level functional redundancy in the human gut microbiome using ultra-deep metaproteomics von Li, Leyuan, Wang, Tong, Ning, Zhibin, Zhang, Xu, Butcher, James, Serrana, Joeselle M., Simopoulos, Caitlin M. A., Mayne, Janice, Stintzi, Alain, Mack, David R., Liu, Yang-Yu, Figeys, Daniel

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Berberine and its structural analogs have differing effects on functional profiles of individual gut microbiomes von Li, Leyuan, Chang, Lu, Zhang, Xu, Ning, Zhibin, Mayne, Janice, Ye, Yang, Stintzi, Alain, Liu, Jia, Figeys, Daniel

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Fabrication of Vertical-Standing Co-MOF Nanoarrays with 2D Parallelogram-like Morphology for Aqueous Asymmetric Electrochemical Capacitors von Li, Leyuan, Mi, Hongtian, Jin, Yuhong, Ren, Dayong, Zhou, Kailing, Zhang, Qianqian, Liu, Jingbing, Wang, Hao

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

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Evaluating live microbiota biobanking using an ex vivo microbiome assay and metaproteomics von Zhang, Xu, Walker, Krystal, Mayne, Janice, Li, Leyuan, Ning, Zhibin, Stintzi, Alain, Figeys, Daniel

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Molecular characterization of hybrid virulence plasmids in ST11-KL64 KPC-2-producing multidrug-resistant hypervirulent Klebsiella pneumoniae from China von Zhang, Fushan, Li, Leyuan, Zhao, Yuxin, Dong, Huiyue, Zhao, Buhui, Zhao, Xiaoyu, Xia, Ziwei, Chi, Leizi, Wang, Yan, Li, Ruichao, Qin, Shangshang, Fu, Xiangjing

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Positive mood-related gut microbiota in a long-term closed environment: a multiomics study based on the "Lunar Palace 365" experiment von Hao, Zikai, Meng, Chen, Li, Leyuan, Feng, Siyuan, Zhu, Yinzhen, Yang, Jianlou, Han, Liangzhe, Sun, Leilei, Lv, Weifeng, Figeys, Daniel, Liu, Hong

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Proteomics and Metaproteomics Add Functional, Taxonomic and Biomass Dimensions to Modeling the Ecosystem at the Mucosal-luminal Interface von Li, Leyuan, Figeys, Daniel

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Network Pharmacology-Based Strategy Integrated with Molecular Docking and In Vitro Experimental Validation to Explore the Underlying Mechanism of Fangji Huangqi Decoction in Treati... von Zhang, Weijin, Guo, Hui, Li, Leyuan, Zhang, Mengmeng, Xu, Erping, Dai, Liping

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Comprehensive Assessment of Functional Effects of Commonly Used Sugar Substitute Sweeteners on Ex Vivo Human Gut Microbiome von Sun, Zhongzhi, Wang, Wenju, Li, Leyuan, Zhang, Xu, Ning, Zhibin, Mayne, Janice, Walker, Krystal, Stintzi, Alain, Figeys, Daniel

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iMetaLab Suite: A one‐stop toolset for metaproteomics von Li, Leyuan, Ning, Zhibin, Cheng, Kai, Zhang, Xu, Simopoulos, Caitlin M. A., Figeys, Daniel

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A functional ecological network based on metaproteomics responses of individual gut microbiomes to resistant starches von Li, Leyuan, Ryan, James, Ning, Zhibin, Zhang, Xu, Mayne, Janice, Lavallée-Adam, Mathieu, Stintzi, Alain, Figeys, Daniel

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Robust stability mechanism of an artificial ecosystem based on biological mutations and synergies driven by ecological information von Hu, Dawei, Du, Xiaojie, Li, Leyuan, Sun, Yi, Zhang, Jinhui, Bai, Fanlu

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MetaProClust-MS1: an MS1 Profiling Approach for Large-Scale Microbiome Screening von Simopoulos, Caitlin M A, Ning, Zhibin, Li, Leyuan, Khamis, Mona M, Zhang, Xu, Lavallée-Adam, Mathieu, Figeys, Daniel

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