Xu Zhang

发表

Peptide-Centric Approaches Provide an Alternative Perspective To Re-Examine Quantitative Proteomic Data.

D. Figeys, Zhibin Ning, Xu Zhang, 2016, Analytical chemistry.

RapidAIM: a culture- and metaproteomics-based Rapid Assay of Individual Microbiome responses to drugs

D. Figeys, Zhibin Ning, Xu Zhang, 2020, Microbiome.

An in vitro model maintaining taxon-specific functional activities of the gut microbiome

D. Figeys, Zhibin Ning, Xu Zhang, 2019, Nature Communications.

Metaproteomic and Metabolomic Approaches for Characterizing the Gut Microbiome

D. Figeys, Zhibin Ning, Xu Zhang, 2019, Proteomics.

Studying the dynamics of the gut microbiota using metabolically stable isotopic labeling and metaproteomics

D. Figeys, Zhibin Ning, Xu Zhang, 2020, bioRxiv.

Bottom-Up Proteomics (2013-2015): Keeping up in the Era of Systems Biology.

D. Figeys, Zhibin Ning, Xu Zhang, 2016, Analytical chemistry.

Advancing functional and translational microbiome research using meta-omics approaches

D. Figeys, Xu Zhang, Leyuan Li, 2019, Microbiome.

Exploring the Microbiome-Wide Lysine Acetylation, Succinylation, and Propionylation in Human Gut Microbiota.

D. Figeys, K. Cheng, Zhibin Ning, 2021, Analytical chemistry.

Exploring the microbiome-wide lysine acetylation, succinylation and propionylation in human gut microbiota

D. Figeys, Zhibin Ning, Xu Zhang, 2020 .

iMetaLab Suite: A one‐stop toolset for metaproteomics

Caitlin M. A. Simopoulos, D. Figeys, K. Cheng, 2022, iMeta.

Comprehensive Assessment of Functional Effects of Commonly Used Sugar Substitute Sweeteners on Ex Vivo Human Gut Microbiome

D. Figeys, Zhibin Ning, Xu Zhang, 2022, Microbiology spectrum.

Metaproteomics reveals growth phase-dependent responses of an in vitro gut microbiota to metformin.

D. Figeys, Zhibin Ning, Xu Zhang, 2020, Journal of the American Society for Mass Spectrometry.

Elevated colonic microbiota-associated paucimannosidic and truncated N-glycans in pediatric ulcerative colitis

D. Figeys, Jianjun Li, K. Cheng, 2021, bioRxiv.

Elevated colonic microbiota-associated paucimannosidic and truncated N-glycans in pediatric ulcerative colitis.

D. Figeys, Jianjun Li, Zhibin Ning, 2021, Journal of proteomics.

Growth phase-dependent responses of an in vitro gut microbiome to metformin

D. Figeys, Zhibin Ning, Xu Zhang, 2020, bioRxiv.

An economic and robust TMT labeling approach for high throughput proteomic and metaproteomic analysis

D. Figeys, Zhibin Ning, Xu Zhang, 2022, bioRxiv.

RapidAIM 2.0: a high-throughput assay to study functional response of human gut microbiome to xenobiotics

D. Figeys, Zhibin Ning, Xu Zhang, 2022, bioRxiv.

Examining the Effects of an Anti-Salmonella Bacteriophage Preparation, BAFASAL®, on Ex-Vivo Human Gut Microbiome Composition and Function Using a Multi-Omics Approach

D. Figeys, Zhibin Ning, Xu Zhang, 2021, bioRxiv.

MetaProClust-MS1: an MS1 Profiling Approach for Large-Scale Microbiome Screening

Caitlin M. A. Simopoulos, D. Figeys, Zhibin Ning, 2022, mSystems.

Microbiome-wide characterization of post-translational 1 modifications 2 Identifying the modification profile from

D. Figeys, K. Cheng, Zhibin Ning, 2019 .

Open: Mucosal‐luminal interface proteomics reveals biomarkers of pediatric inflammatory bowel disease‐associated colitis

D. Figeys, Zhibin Ning, Xu Zhang, 2018, The American Journal of Gastroenterology.

MetaLab-MAG: A Metaproteomic Data Analysis Platform for Genome-Level Characterization of Microbiomes from the Metagenome-Assembled Genomes Database

D. Figeys, K. Cheng, Zhibin Ning, 2022, Journal of proteome research.

Assessing the impact of protein extraction methods for human gut metaproteomics.

Zhibin Ning, Xu Zhang, Leyuan Li, 2017, Journal of proteomics.

Berberine and its structural analogs have differing effects on functional profiles of individual gut microbiomes

D. Figeys, Zhibin Ning, Xu Zhang, 2020, Gut microbes.

Proteomic analysis of ascending colon biopsies from a paediatric inflammatory bowel disease inception cohort identifies protein biomarkers that differentiate Crohn's disease from UC

D. Figeys, Zhibin Ning, Xu Zhang, 2016, Gut.

Widespread protein lysine acetylation in gut microbiome and its alterations in patients with Crohn’s disease

Zhibin Ning, Xu Zhang, Krystal Walker, 2020, Nature Communications.

pepFunk: a tool for peptide-centric functional analysis of metaproteomic human gut microbiome studies.

Xu Zhang, Caitlin M. A. Simopoulos, Zhibin Ning, 2020, Bioinformatics.

pepFunk, a tool for peptide-centric functional analysis in metaproteomic human gut microbiome studies

Caitlin M. A. Simopoulos, Zhibin Ning, Xu Zhang, 2019, bioRxiv.

Aging Disrupts the Circadian Patterns of Protein Expression in the Murine Hippocampus

D. Figeys, Zhibin Ning, Xu Zhang, 2020, Frontiers in Aging Neuroscience.

A Chemoenzymatic Method for Glycoproteomic N-glycan Type Quantitation.

D. Figeys, Jianjun Li, Zhibin Ning, 2019, Analytical chemistry.

A Chemoenzymatic Method for Glycoproteomic N-glycan Type Quantitation

D. Figeys, Jianjun Li, Zhibin Ning, 2019, bioRxiv.

Perspective and Guidelines for Metaproteomics in Microbiome Studies.

Xu Zhang, Daniel Figeys, D. Figeys, 2019, Journal of proteome research.

Deep Metaproteomics Approach for the Study of Human Microbiomes.

Zhibin Ning, Xu Zhang, Daniel Figeys, 2017, Analytical chemistry.

Advancing functional and translational microbiome research using meta-omics approaches

D. Figeys, Xu Zhang, Leyuan Li, 2019, Microbiome.

Metaproteomics reveals associations between microbiome and intestinal extracellular vesicle proteins in pediatric inflammatory bowel disease

James Butcher, Zhibin Ning, Xu Zhang, 2018, Nature Communications.

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

D. Figeys, Xu Zhang, Tong Zhang, 2019, Microbiome.

Evaluating live microbiota biobanking using an ex vivo microbiome assay and metaproteomics

D. Figeys, Zhibin Ning, Xu Zhang, 2021, bioRxiv.

MetaLab 2.0 enables accurate post-translational modifications profiling in metaproteomics.

D. Figeys, Zhibin Ning, Xu Zhang, 2020, Journal of the American Society for Mass Spectrometry.

MetaLab 2.0 enables accurate post-translational modifications profiling in metaproteomics

D. Figeys, Zhibin Ning, Xu Zhang, 2020 .

Microbiome-wide characterization of post-translational modifications

D. Figeys, K. Cheng, Zhibin Ning, 2019, bioRxiv.

RapidAIM: a culture- and metaproteomics-based Rapid Assay of Individual Microbiome responses to drugs

D. Figeys, Zhibin Ning, Xu Zhang, 2019, Microbiome.

Evaluating in Vitro Culture Medium of Gut Microbiome with Orthogonal Experimental Design and a Metaproteomics Approach.

James Butcher, Zhibin Ning, Xu Zhang, 2018, Journal of proteome research.

Proteomic and Metaproteomic Approaches to Understand Host-Microbe Interactions.

Zhibin Ning, Xu Zhang, Leyuan Li, 2018, Analytical chemistry.

MetaLab: an automated pipeline for metaproteomic data analysis

D. Figeys, Zhibin Ning, Xu Zhang, 2017, Microbiome.

MetaPro-IQ: a universal metaproteomic approach to studying human and mouse gut microbiota

James Butcher, Zhibin Ning, Xu Zhang, 2016, Microbiome.

MetaProClust-MS1: A tool for clustering metaproteomes using rapid MS1 profiling

Caitlin M. A. Simopoulos, D. Figeys, Zhibin Ning, 2021, bioRxiv.

Quantitative analysis of SARS-CoV-2 RNA from wastewater solids in communities with low COVID-19 incidence and prevalence

D. Figeys, M. Servos, Xu Zhang, 2020, Water Research.

Proteogenomic characterization identifies clinically relevant subgroups of intrahepatic cholangiocarcinoma.

D. Figeys, Yongyong Shi, Xu Zhang, 2021, Cancer cell.

A functional ecological network based on metaproteomics responses of individual gut microbiomes to resistant starches

D. Figeys, Zhibin Ning, Xu Zhang, 2020, Computational and structural biotechnology journal.

Metaproteomic responses of in vitro gut microbiomes to resistant starches: the role of resistant starch type and inter-individual variations

D. Figeys, Zhibin Ning, Xu Zhang, 2020, bioRxiv.

An emerging field: Post‐translational modification in microbiome

D. Figeys, Xu Zhang, Haonan Duan, 2022, Proteomics.

MetaPro-IQ: a universal metaproteomic approach to studying human and mouse gut microbiota

D. Figeys, Zhibin Ning, Xu Zhang, 2016, Microbiome.

Separation and characterization of human microbiomes by metaproteomics

Zhibin Ning, Xu Zhang, Daniel Figeys, 2018, TrAC Trends in Analytical Chemistry.

Microbiota-directed biotherapeutics: considerations for quality and functional assessment

D. Figeys, Xu Zhang, Emily Ef Fekete, 2023, Gut microbes.

An in vitro model maintaining taxon-specific functional activities of the gut microbiome

D. Figeys, Zhibin Ning, Xu Zhang, 2019, Nature Communications.

iMetaLab 1.0: a web platform for metaproteomics data analysis

Xu Zhang, Kai Cheng, Bo Liao, 2018, Bioinform..

Deep characterization of the protein lysine acetylation in human gut microbiome and its alterations in patients with Crohn’s disease

D. Figeys, Zhibin Ning, Xu Zhang, 2019 .

Studying the Temporal Dynamics of the Gut Microbiota Using Metabolic Stable Isotope Labeling and Metaproteomics.

D. Figeys, Zhibin Ning, Xu Zhang, 2020, Analytical chemistry.

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

D. Figeys, M. Servos, Xu Zhang, 2020, Science of The Total Environment.

Comparative proteomic analysis reveals metabolic variability of probiotic Enterococcus durans during aerobic and anaerobic cultivation.

D. Figeys, Xu Zhang, A. Brandelli, 2020, Journal of proteomics.

Differential Lysis Approach Enables Selective Extraction of Taxon-Specific Proteins for Gut Metaproteomics.

D. Figeys, Zhibin Ning, Xu Zhang, 2020, Analytical chemistry.

Revealing proteome-level functional redundancy in the human gut microbiome using ultra-deep metaproteomics

Caitlin M. A. Simopoulos, D. Figeys, Yang‐Yu Liu, 2021, bioRxiv.

Comprehensive assessment of functional effects of commonly used sweeteners on ex vivo human gut microbiome

D. Figeys, Zhibin Ning, Xu Zhang, 2022, bioRxiv.

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

D. Figeys, Xu Zhang, Tong Zhang, 2019, Microbiome.

An emerging field: Post‐translational modification in microbiome

D. Figeys, Xu Zhang, Haonan Duan, 2022, PROTEOMICS.

Bottom-Up Proteomics (2013-2015): Keeping up in the Era of Systems Biology.

D. Figeys, Zhibin Ning, Xu Zhang, 2016, Analytical chemistry.

The Influence of Protein Secretomes of Enterococcus durans on ex vivo Human Gut Microbiome.

D. Figeys, Xu Zhang, J. Mayne, 2023, Probiotics and antimicrobial proteins.

In Vitro Metabolic Labeling of Intestinal Microbiota for Quantitative Metaproteomics.

James Butcher, Zhibin Ning, Xu Zhang, 2016, Analytical chemistry.

MetaLab: an automated pipeline for metaproteomic data analysis

Zhibin Ning, Xu Zhang, Leyuan Li, 2017, Microbiome.