Publications on RapidAIM:

 

Evaluating live microbiota biobanking using an ex vivo microbiome assay and metaproteomics, Zhang X, Walker K, Mayne J, Li L, Ning Z, Stintzi A, Figeys D.Gut Microbes. 2022 Jan-Dec;14(1):2035658. doi: 10.1080/19490976.2022.2035658.PMID: 35130123.

Comprehensive Assessment of Functional Effects of Commonly Used Sugar Substitute Sweeteners on Ex Vivo Human Gut Microbiome, Sun Z, Wang W, Li L, Zhang X, Ning Z, Mayne J, Walker K, Stintzi A, Figeys D.Microbiol Spectr. 2022 Jun 13:e0041222. doi: 10.1128/spectrum.00412-22. Online ahead of print.PMID: 35695565 

Examining the Effects of an Anti-Salmonella Bacteriophage Preparation, BAFASAL®, on Ex-Vivo Human Gut Microbiome Composition and Function Using a Multi-Omics Approach, Mayne J, Zhang X, Butcher J, Walker K, Ning Z, Wójcik E, Dastych J, Stintzi A, Figeys D.Viruses. 2021 Aug 31;13(9):1734. doi: 10.3390/v13091734.PMID: 3457831

Berberine and its structural analogs have differing effects on functional profiles of individual gut microbiomes, Li L, Chang L, Zhang X, Ning Z, Mayne J, Ye Y, Stintzi A, Liu J, Figeys D.Gut Microbes. 2020 Sep 2;11(5):1348-1361. doi: 10.1080/19490976.2020.1755413. Epub 2020 May 6.PMID: 32372706

 

RapidAIM: a culture- and metaproteomics-based Rapid Assay of Individual Microbiome responses to drugs, Li L, Ning Z, Zhang X, Mayne J, Cheng K, Stintzi A, Figeys D.Microbiome. 2020 Mar 11;8(1):33. doi: 10.1186/s40168-020-00806-z.PMID: 32160905 

An in vitro model maintaining taxon-specific functional activities of the gut microbiome, Li L, Abou-Samra E, Ning Z, Zhang X, Mayne J, Wang J, Cheng K, Walker K, Stintzi A, Figeys D.Nat Commun. 2019 Sep 12;10(1):4146. doi: 10.1038/s41467-019-12087-8.PMID: 31515476 

 

Publications on MetaLab:

MetaLab 2.0 Enables Accurate Post-Translational Modifications Profiling in Metaproteomics, Cheng K, Ning Z, Zhang X, Li L, Liao B, Mayne J, Figeys D.J Am Soc Mass Spectrom. 2020 Jul 1;31(7):1473-1482. doi: 10.1021/jasms.0c00083. Epub 2020 May 29.PMID: 32396346

iMetaLab 1.0: a web platform for metaproteomics data analysis, Liao B, Ning Z, Cheng K, Zhang X, Li L, Mayne J, Figeys D.Bioinformatics. 2018 Nov 15;34(22):3954-3956. doi: 10.1093/bioinformatics/bty466.PMID: 29912378

MetaLab: an automated pipeline for metaproteomic data analysis, Cheng K, Ning Z, Zhang X, Li L, Liao B, Mayne J, Stintzi A, Figeys D.Microbiome. 2017 Dec 2;5(1):157. doi: 10.1186/s40168-017-0375-2.PMID: 2919742

MetaPro-IQ: a universal metaproteomic approach to studying human and mouse gut microbiota, Zhang X, Ning Z, Mayne J, Moore JI, Li J, Butcher J, Deeke SA, Chen R, Chiang CK, Wen M, Mack D, Stintzi A, Figeys D.Microbiome. 2016 Jun 24;4(1):31. doi: 10.1186/s40168-016-0176-z.PMID: 27343061