M2IA: a web server for microbiome and metabolome integrative analysis

Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2

(2019) Evan Bolyen et al.   NATURE BIOTECHNOLOGY

Predictive metabolomic profiling of microbial communities using amplicon or metagenomic sequences

(2019) Himel Mallick et al.   Nature Communications

Advancing functional and translational microbiome research using meta-omics approaches

(2019) Xu Zhang et al.   Microbiome

Volatile metabolites in breath strongly correlate with gut microbiome in CD patients

(2018) Agnieszka Smolinska et al.   ANALYTICA CHIMICA ACTA

Strategy for an Association Study of the Intestinal Microbiome and Brain Metabolome Across the Lifespan of Rats

(2018) Tianlu Chen et al.   ANALYTICAL CHEMISTRY

Link between gut-microbiome derived metabolite and shared gene-effects with hepatic steatosis and fibrosis in NAFLD

(2018) Cyrielle Caussy et al.   HEPATOLOGY

Effect of protocatechuic acid on insulin responsiveness and inflammation in visceral adipose tissue from obese individuals: possible role for PTP1B

(2018) Paulina Ormazabal et al.   INTERNATIONAL JOURNAL OF OBESITY

Data processing, multi-omic pathway mapping, and metabolite activity analysis using XCMS Online

(2018) Erica M Forsberg et al.   Nature Protocols

Missing Value Imputation Approach for Mass Spectrometry-based Metabolomics Data

(2018) Runmin Wei et al.   Scientific Reports

A computational framework to integrate high-throughput ‘-omics’ datasets for the identification of potential mechanistic links

(2018) Helle Krogh Pedersen et al.   Nature Protocols

Gut microbiome structure and metabolic activity in inflammatory bowel disease

(2018) Eric A. Franzosa et al.   Nature Microbiology

Evaluation of metabolite-microbe correlation detection methods

(2018) Yijun You et al.   ANALYTICAL BIOCHEMISTRY

MicrobiomeAnalyst: a web-based tool for comprehensive statistical, visual and meta-analysis of microbiome data

(2017) Achal Dhariwal et al.   NUCLEIC ACIDS RESEARCH

Microbiome and metabolome data integration provides insight into health and disease

(2017) Michael Shaffer et al.   Translational Research

Analyses of gut microbiota and plasma bile acids enable stratification of patients for antidiabetic treatment

(2017) Yanyun Gu et al.   Nature Communications

Compositional data analysis of the microbiome: fundamentals, tools, and challenges

(2016) Matthew C.B. Tsilimigras et al.   ANNALS OF EPIDEMIOLOGY

Genetic Determinants of the Gut Microbiome in UK Twins

(2016) Julia K. Goodrich et al.   Cell Host & Microbe

Intestinal Crosstalk between Bile Acids and Microbiota and Its Impact on Host Metabolism

(2016) Annika Wahlström et al.   Cell Metabolism

Gut Microbiota Profiling: Metabolomics Based Approach to Unravel Compounds Affecting Human Health

(2016) Pamela Vernocchi et al.   Frontiers in Microbiology

Metabolic Model-Based Integration of Microbiome Taxonomic and Metabolomic Profiles Elucidates Mechanistic Links between Ecological and Metabolic Variation

(2016) Cecilia Noecker et al.   mSystems

The Dynamics of the Human Infant Gut Microbiome in Development and in Progression toward Type 1 Diabetes

(2015) Aleksandar D. Kostic et al.   Cell Host & Microbe

Application of metagenomics in the human gut microbiome

(2015) Wei-Lin Wang et al.   WORLD JOURNAL OF GASTROENTEROLOGY

The gut microbiota, bacterial metabolites and colorectal cancer

(2014) Petra Louis et al.   NATURE REVIEWS MICROBIOLOGY

Integrative analysis of the microbiome and metabolome of the human intestinal mucosal surface reveals exquisite inter-relationships

(2013) Ian H McHardy et al.   Microbiome

The human microbiome: at the interface of health and disease

(2012) Ilseung Cho et al.   NATURE REVIEWS GENETICS

Metabolic Reconstruction for Metagenomic Data and Its Application to the Human Microbiome

(2012) Sahar Abubucker et al.   PLoS Computational Biology

Sparse PLS discriminant analysis: biologically relevant feature selection and graphical displays for multiclass problems

(2011) Kim-Anh Lê Cao et al.   BMC BIOINFORMATICS

Pathway Activity Profiling (PAPi): from the metabolite profile to the metabolic pathway activity

(2010) Raphael B. M. Aggio et al.   BIOINFORMATICS

A Sparse PLS for Variable Selection when Integrating Omics Data

(2008) Kim-Anh Lê Cao et al.   Statistical Applications in Genetics and Molecular Biology