Enrichment or depletion? The impact of stool pretreatment on metaproteomic characterization of the human gut microbiota

Bacterial protein signals are associated with Crohn’s disease

(2014) Catherine Juste et al.   GUT

Microbiota and diabetes: an evolving relationship

(2014) Herbert Tilg et al.   GUT

A role for the gut microbiota in IBS

(2014) Stephen M. Collins   Nature Reviews Gastroenterology & Hepatology

The gut microbiota, bacterial metabolites and colorectal cancer

(2014) Petra Louis et al.   NATURE REVIEWS MICROBIOLOGY

How to submit MS proteomics data to ProteomeXchange via the PRIDE database

(2014) Tobias Ternent et al.   PROTEOMICS

In-Vivo Quantitative Proteomics Reveals a Key Contribution of Post-Transcriptional Mechanisms to the Circadian Regulation of Liver Metabolism

(2014) Maria S. Robles et al.   PLoS Genetics

A straightforward and efficient analytical pipeline for metaproteome characterization

(2014) Alessandro Tanca et al.   Microbiome

Metaproteomics: Harnessing the Power of High Performance Mass Spectrometry to Identify the Suite of Proteins That Control Metabolic Activities in Microbial Communities

(2013) Robert L. Hettich et al.   ANALYTICAL CHEMISTRY

Metaproteomics Analysis Reveals the Adaptation Process for the Chicken Gut Microbiota

(2013) Yue Tang et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Metaproteomics of our microbiome — Developing insight in function and activity in man and model systems

(2013) Carolin A. Kolmeder et al.   Journal of Proteomics

Bacterial colonization factors control specificity and stability of the gut microbiota

(2013) S. Melanie Lee et al.   NATURE

The gut microbiota — masters of host development and physiology

(2013) Felix Sommer et al.   NATURE REVIEWS MICROBIOLOGY

Data, information, knowledge and principle: back to metabolism in KEGG

(2013) Minoru Kanehisa et al.   NUCLEIC ACIDS RESEARCH

A Multi-Omic View of Host-Pathogen-Commensal Interplay in Salmonella-Mediated Intestinal Infection

(2013) Brooke L. Deatherage Kaiser et al.   PLoS One

Evaluating the Impact of Different Sequence Databases on Metaproteome Analysis: Insights from a Lab-Assembled Microbial Mixture

(2013) Alessandro Tanca et al.   PLoS One

Comparison of detergent-based sample preparation workflows for LTQ-Orbitrap analysis of theEscherichia coliproteome

(2013) Alessandro Tanca et al.   PROTEOMICS

‘Omics’ of the mammalian gut – new insights into function

(2012) Regina Lamendella et al.   CURRENT OPINION IN BIOTECHNOLOGY

The impact of gut microbes in allergic diseases

(2012) Shannon L. Russell et al.   CURRENT OPINION IN GASTROENTEROLOGY

Microbiota from the distal guts of lean and obese adolescents exhibit partial functional redundancy besides clear differences in community structure

(2012) Manuel Ferrer et al.   ENVIRONMENTAL MICROBIOLOGY

Gut microbiota disturbance during antibiotic therapy: a multi-omic approach

(2012) Ana Elena Pérez-Cobas et al.   GUT

Metaproteome Analysis and Molecular Genetics of Rat Intestinal Microbiota Reveals Section and Localization Resolved Species Distribution and Enzymatic Functionalities

(2012) Sven-Bastiaan Haange et al.   JOURNAL OF PROTEOME RESEARCH

Unipept: Tryptic Peptide-Based Biodiversity Analysis of Metaproteome Samples

(2012) Bart Mesuere et al.   JOURNAL OF PROTEOME RESEARCH

Comparability of differential proteomics data generated from paired archival fresh-frozen and formalin-fixed samples by GeLC–MS/MS and spectral counting

(2012) Alessandro Tanca et al.   Journal of Proteomics

Searching for a needle in a stack of needles: challenges in metaproteomics data analysis

(2012) Thilo Muth et al.   Molecular BioSystems

Functional interactions between the gut microbiota and host metabolism

(2012) Valentina Tremaroli et al.   NATURE

The role of the gut microbiota in nutrition and health

(2012) Harry J. Flint et al.   Nature Reviews Gastroenterology & Hepatology

The Proteomics Identifications (PRIDE) database and associated tools: status in 2013

(2012) Juan Antonio Vizcaíno et al.   NUCLEIC ACIDS RESEARCH

Comparative Metaproteomics and Diversity Analysis of Human Intestinal Microbiota Testifies for Its Temporal Stability and Expression of Core Functions

(2012) Carolin A. Kolmeder et al.   PLoS One

Integrated Metagenomics/Metaproteomics Reveals Human Host-Microbiota Signatures of Crohn's Disease

(2012) Alison R. Erickson et al.   PLoS One

Interactions Between the Microbiota and the Immune System

(2012) L. V. Hooper et al.   SCIENCE

An iterative workflow for mining the human intestinal metaproteome

(2011) Koos Rooijers et al.   BMC GENOMICS

The role of bacteria and pattern-recognition receptors in Crohn's disease

(2011) Si Ming Man et al.   Nature Reviews Gastroenterology & Hepatology

Reorganizing the protein space at the Universal Protein Resource (UniProt)

(2011)   NUCLEIC ACIDS RESEARCH

KOBAS 2.0: a web server for annotation and identification of enriched pathways and diseases

(2011) Chen Xie et al.   NUCLEIC ACIDS RESEARCH

Metagenomic biomarker discovery and explanation

(2011) Nicola Segata et al.   GENOME BIOLOGY

PSORTb 3.0: improved protein subcellular localization prediction with refined localization subcategories and predictive capabilities for all prokaryotes

(2010) Nancy Y. Yu et al.   BIOINFORMATICS

Gut Microbiota in Human Adults with Type 2 Diabetes Differs from Non-Diabetic Adults

(2010) Nadja Larsen et al.   PLoS One

Universal sample preparation method for proteome analysis

(2009) Jacek R Wiśniewski et al.   NATURE METHODS

Shotgun metaproteomics of the human distal gut microbiota

(2008) Nathan C Verberkmoes et al.   ISME Journal