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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The functional diversity of protein lysine methylation von Lanouette, Sylvain, Mongeon, Vanessa, Figeys, Daniel, Couture, Jean‐François

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Proteogenomic characterization identifies clinically relevant subgroups of intrahepatic cholangiocarcinoma von Dong, Liangqing, Lu, Dayun, Chen, Ran, Lin, Youpei, Zhu, Hongwen, Zhang, Zhou, Cai, Shangli, Cui, Peng, Song, Guohe, Rao, Dongning, Yi, Xinpei, Wu, Yingcheng, Song, Nixue, Liu, Fen, Zou, Yunhao, Zhang, Shu, Zhang, Xiaoming, Wang, Xiaoying, Qiu, Shuangjian, Zhou, Jian, Wang, Shisheng, Zhang, Xu, Shi, Yongyong, Figeys, Daniel, Ding, Li, Wang, Pei, Zhang, Bing, Rodriguez, Henry, Gao, Qiang, Gao, Daming, Zhou, Hu, Fan, Jia

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Catching a resurgence: Increase in SARS-CoV-2 viral RNA identified in wastewater 48 h before COVID-19 clinical tests and 96 h before hospitalizations von D'Aoust, Patrick M., Graber, Tyson E., Mercier, Elisabeth, Montpetit, Danika, Alexandrov, Ilya, Neault, Nafisa, Baig, Aiman Tariq, Mayne, Janice, Zhang, Xu, Alain, Tommy, Servos, Mark R., Srikanthan, Nivetha, MacKenzie, Malcolm, Figeys, Daniel, Manuel, Douglas, Jüni, Peter, MacKenzie, Alex E., Delatolla, Robert

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Altered intestinal microbiota–host mitochondria crosstalk in new onset Crohn’s disease von Mottawea, Walid, Chiang, Cheng-Kang, Mühlbauer, Marcus, Starr, Amanda E., Butcher, James, Abujamel, Turki, Deeke, Shelley A., Brandel, Annette, Zhou, Hu, Shokralla, Shadi, Hajibabaei, Mehrdad, Singleton, Ruth, Benchimol, Eric I., Jobin, Christian, Mack, David R., Figeys, Daniel, Stintzi, Alain

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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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Microbiota-directed biotherapeutics: considerations for quality and functional assessment von Fekete, Emily Ef, Figeys, Daniel, Zhang, Xu

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Mapping the human protein interactome von 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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PINK1-mediated phosphorylation of LETM1 regulates mitochondrial calcium transport and protects neurons against mitochondrial stress von Huang, En, Qu, Dianbo, Huang, Tianwen, Rizzi, Nicoletta, Boonying, Wassamon, Krolak, Dorothy, Ciana, Paolo, Woulfe, John, Klein, Christine, Slack, Ruth S., Figeys, Daniel, Park, David S.

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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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Widespread protein lysine acetylation in gut microbiome and its alterations in patients with Crohn’s disease von Zhang, Xu, Ning, Zhibin, Mayne, Janice, Yang, Yidai, Deeke, Shelley A., Walker, Krystal, Farnsworth, Charles L., Stokes, Matthew P., Couture, Jean-François, Mack, David, Stintzi, Alain, Figeys, Daniel

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Methylmercury can induce Parkinson’s-like neurotoxicity similar to 1-methyl-4- phenylpyridinium: a genomic and proteomic analysis on MN9D dopaminergic neuron cells von Shao, Yueting, Figeys, Daniel, Ning, Zhibin, Mailloux, Ryan, Chan, Hing Man

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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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Perspective and Guidelines for Metaproteomics in Microbiome Studies von Zhang, Xu, Figeys, Daniel

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Lab-on-a-Chip: A Revolution in Biological and Medical Sciences von FIGEYS, Daniel, PINTO, Devanand

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Proteomics in 2002:  A Year of Technical Development and Wide-Ranging Applications von 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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Exploring the effects of operational mode and microbial interactions on bacterial community assembly in a one-stage partial-nitritation anammox reactor using integrated multi-omics von Wang, Yulin, Niu, Qigui, Zhang, Xu, Liu, Lei, Wang, Yubo, Chen, Yiqiang, Negi, Mishty, Figeys, Daniel, Li, Yu-You, Zhang, Tong

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