Imperial College London

Professor Marc-Emmanuel Dumas

Faculty of MedicineDepartment of Metabolism, Digestion and Reproduction

Chair in Systems Medicine



+44 (0)20 7594 1820m.dumas Website




128Sir Alexander Fleming BuildingSouth Kensington Campus





Professor Marc-Emmanuel Dumas, PhD MEng MSc BEng BSc FRSB FRSC 

Marc-Emmanuel Dumas is Chair in Systems Medicine, a joint appointment between the Department of Metabolism, Digestion and Reproduction's section of Biomolecular Medicine and the National Heart and Lung Institute's section of Genomic and Environmental Medicine.

Professor Dumas develops novel research avenues in the field of metabolomics, microbiomics in systems medicine, targeting mostly metabolic and cardiorespiratory diseases but also chronic inflammation and cancer. Professor Dumas heads Imperial's Microbiome Network, a cross-faculty multidisciplinary network of excellence made of >50 PIs and their groups to consolidate research, teaching and public engagement activities around the microbiome.

Professor Dumas currently holds an Adjunct Professorship at McGill University's Genome Innovation Centre and Department of Human Genetics in Montréal, Canada, and an open-ended appointment as CNRS principal investigator in France.

Prior to this, he was appointed at Imperial as Lecturer (2009-2013), Senior Lecturer (2013-2015) and Reader (2015-2018). He took his CNRS position at Ecole Normale Supérieure de Lyon in 2007, where he started a metabolomics and systems biology group and was awarded a Young Investigator Award from the Agence Nationale de la Recherche. 

He studied in France and qualified as an Engineer in Agronomy (MEng, Ingénieur Agronome) in 1998 with two MSc in "Biochemistry & Genetics" and "Applied Physiology", before being awarded a PhD in "Biochemistry, Molecular and Cell Biology" in 2002 and joining Imperial to coordinate the metabolomics team of the Wellcome Trust-funded Biological Atlas of Insulin Resistance consortium (BAIR), where he led pioneering research on the role of microbial metabolites in non-alcoholic fatty liver disease, insulin resistance and type 2 diabetes.

Membership of Societies

Committees and Editorships

Professor Dumas is an Editor of Scientific Reports (Nature Publishing Group), Acta Diabetologica and was a member of the editorial board for the Journal of Proteome Research (American Chemical Association, 2009-2013). 

He is an international member of the grant award committee for the French national research council Agence Nationale de la Recherche (ANR) and a reviewer for the H-2020 European framework programme.

Awards and funding

Professor Dumas' lab recent funding includes by EU, MRC, Guts UK and the Academy of Medical Sciences grants. He also attracted industrial funding from Nestlé (2009-2012) and Institut Mérieux (2011-2014)During his CNRS appointment at ENS-Lyon, he was awarded a Young Investigator Award from the French Agence Nationale de la Recherche (ANR Jeune Chercheur) and several other ANR grants. Recent grants include for instance:

  • NEW UKRI: UK Coronavirus Immunology Consortium, 2020-2021 (CoI)
  • NEW Diabetes UK: Causality Assessment of the Gut-Liver Axis in insulin Resistance, 2020-2023 (PI)
  • Academy of Medical Sciences: Metabolomics and Precision Medicine for Myocardial Recovery, (starter grant to Dr. Brian Halliday, 2019-2021).
  • Guts UK: Precision Medicine Through Integrative Metagenomics and Phenomics in Human Non-Alcoholic Fatty Liver Disease, 2019-2021 (PI)
  • ERANET(MRC/ANR/BMBF/MINECO): The Gut Microbiome in Neuroinflammation and Neurodevelopmental Disorders (µNeuroInf) 2015-2018 (Coordinator, total award €1.1M).
  • EC-FP7: Metagenomics and Integrative Systems Medicine of Cardiometabolic Diseases (MetaCardis) 2012-2018 (total award €12M, PI for Imperial €1.2M)
  • The Royal Society - CNRS: Metabonomics of Fragile X Syndrome "MetabonomiX"
  • Institut Mérieux: Signalling Metabolites, 2010-2013 (sole PI €150K)
  • EC-FP7: European large-scale functional genomics in the rat for translational research (CoI, Euratrans: 2010-2015)
  • Young Investigator Award, Agence Nationale de la Recherche, 2007 (€150K)
  • Several ANR grants (mQTL, SysBioX, 2007-2011), France (total €1M)


Prof. Dumas’ research interests in systems medicine include metabolomics, quantitative genetics, metagenomics and network biology, more specifically integration of metabolomic data with other "omics" (transcriptomics, proteomics, genome polymorphism and metagenomics) to identify metabolites and genes associated with metabolic and cardiorespiratory pathologies, ie insulin resistance,  metabolic syndrome, type 2 diabetes, obesity, asthma, dyslipidemia, atherosclerosis, hypertension, non-alcoholic fatty liver disease, but also ageing and cancer. This functional integration of "omics" sciences identifies candidate drug targets for mechanistic validation.

Prof. Dumas’ contribution to insulin resistance research was the identification of a gut microbiota  – related metabolic phenotype (or “metabotype”) in non-alcoholic fatty liver disease. Methylamines (monomethylamine, dimethylamine, trimethylamine and trimethylamine-N-oxide), a class of microbial metabolites derived from dietary choline-containing compounds, are associated with the development of insulin resistance, and more specifically non-alcoholic fatty liver disease. This observation on gut microbial metabolism brought an independent confirmation of several previous findings in metagenomic projects from a metabolic point of view. Methylamines are now thought to be involved in other insulin resistance related pathologies such as atherosclerosis. 

In terms of systems biology modeling, Prof. Dumas is one of the pioneers in the field of Metabotype Quantitative Trait Locus (mQTL) Mapping and Metabolome-wide Genome-Wide Association Studies (i.e., metabolomic GWAS), by integrating genome-wide polymorphisms with metabolome-wide quantitative variation. Dr. Dumas now develops the concept of microbiome-wide metabolome-wide association studies (MW2AS), combining High-Throughput Sequencing and Metabolic Profiling technologies. Prof. Dumas has also developed a keen interest in knowledge visualization and integration of metabolic signatures with protein-protein interaction networks (interactome), and recently introduced a new approach to understand the regulation of metabolic patterns, by mapping metabolic networks onto protein-protein interaction networks: integrated metabolome and interactome mapping (iMIM).

Prof. Dumas introduced the concept of "Metabolomics-on-a-chip", i.e. the hyphenation of bioartificial organs based on microfluidic biochips with metabolic profiling technologies, and pioneered applications for in vitro predictive systems toxicology and pharmacology.

Current Group memberS

  • Dr. Petros Andrikopoulos (Postdoc in Microbiome-Host Crosstalk)
  • Dr. Kanta Chechi (MRC Research Fellow, 2018-2021)
  • Ms. Nadeen Habboub (PhD in NAFLD metabolomics and metagenomics, 2019-2022)
  • Ms. Flavia Valeo (PhD in Traumatic Brain Injury Metabolomics, 2016-2017) 
  • Mr. Michael Olanipekun (PhD in Lung cancer metabolomics, 2018-2021)
  • Dr. Alexandre Nuzzo (Clinical Research Fellow, PhD in acute mesenteric ischaemia metabolomics, 2018-2021)
  • 2 postdoc positions currently available 

POSITIONS (Currently 2 vacancIES)

Excellent candidates with the following profiles are encouraged to get in touch:

  • Microbiome-associated metabolome mining by LC-MS/MS (metabolite annotation, dereplication, molecular networking, development of targeted assays)
  • Computational metagenomics (shotgun sequence processing, building gene atlas, functional mapping, focus on the metabolic output of the microbiome)


  • Mr. Ricardo Minaya Sainz (MRes in Cancer Biology 2019-2020)
  • Mr. Linghen He (Mres in Biomedical Research 2019-2020)
  • Dr. Francesco Pallotti (Clinical Research Fellow, PhD in Endocrinology, 2018-2019)
  • Ms Tatiana Mattio (Mres in Biomedical Research 2018-2019)
  • Dr. Antonis Myridakis (Postdoc in Translational Metabolomics, 2015-2018)
  • Dr. Laura Martinez-Gili (Postdoc in Microbial Metabolome and Neuroinflammation, 2015-2018)
  • Dr Julien Chilloux (Postdoc in Microbial Metabolome in CardioMetabolic Diseases, Imperial 2012-2017)
  • Dr Ana Luisa Neves, MD (PhD student in Clinical Sciences, Imperial 2014-2017)
  • Dr Andrea Rodriguez Martinez (PhD in Genetical Metabolomics, Imperial 2013-2017)
  • Ms Ruby Kozlowski (MRes in Biomedical Sciences, Imperial 2017-2018)
  • Ms Elina Alambriti (MRes in Biomedical Sciences, Imperial 2017-2018)
  • Dr Magali Sarafian (PhD in Nutrimetabonomics, Imperial 2011-2015)
  • Ms Leonie Kohlhammer (MRes in Biomedical Sciences, Imperial 2015-2016)
  • Mr Erik Marzaganov (MRes in Biomedical Sciences, Imperial 2015-2016)
  • Ms Valeria Nikolaenko (MRes in Biomedical Sciences, Imperial 2015-2016)
  • Ms Hajrah Sarkar (MRes in Biomedical Sciences, Imperial 2015-2016)
  • Ms Sophie Thayanithy (MRes in Cancer Biology, Imperial 2015-2016)
  • Ms Islay Campbell (MSc in Human Molecular Genetics, Imperial 2015-2016)
  • Mr Mohd Badrin Hanizam Abdul-Rahim (PhD in Cell Metabolomics, Imperial 2012-2015)
  • Ms Abellona (Mei) U (MRes in Biomedical Sciences, Imperial 2014-2015)
  • Dr. Jessica Le Ven (Postdoc in Biomedical Mass Spectrometry, Imperial 2012-2015)
  • Mr Aamer Mughal (Year 4 Medic / BSc Pharmacology, Imperial 2014-2015)
  • Ms Sharim Ponticelli-Turner (BSc Pharmacology, Imperial 2014-2015)
  • Mr Michele Calabrese (Mres in Biomedical Sciences, Imperial 2014-2015)
  • Ms Emily (Zhanxuan) Wu (MRes in Biomedical Sciences, Imperial 2014-2015)
  • Dr. Lesley Hoyles (Postdoc in Translational Sytems Biology, Imperial 2012-2014)
  • Ms Clare O'Malley (MRes in Biomedical Sciences, Imperial 2013-2014)
  • Mr Richard Perryman (MRes in Biomedical Sciences, Imperial 2013-2014)
  • Dr. Claire L. Boulangé. (PhD student in Nutrimtabonomics, Imperial 2010-2014)
  • Dr Quan Gu (Postdoc in Bioinformatics, Imperial 2011-2013)
  • Ms Katarzyna Roguska (MRes in Biomedical Sciences, Imperial 2012-2013)
  • Dr Chi (Janice) Kwok (MRes in Biomedical Sciences, Imperial 2012-2013)
  • Ms Elisa Noll (MRes in Biomedical Sciences, Imperial, 2011-2012)
  • Ms Jaya Venkitachalam (MRes in Biomedical Sciences, Imperial, 2011-2012)
  • Ms Chloé Deshayes (BSc in Food science, 07/2011-12/2011)
  • Ms Océane Carle (BSc in Food science, 07/2011-12/2011)
  • Mr Kyrillos Georgiadis Adesina (MSc in Human Genetics, Imperial 03/2010-08/2011) 
  • Dr Clément Pontoizeau (PhD student, ENS-Lyon)
  • Dr Mohamed Triba (postdoc, ENS-Lyon)
  • Dr Vincent Navratil (postdoc ENS-Lyon)
  • Dr Céline Domange (postdoc ENS-Lyon)
  • Dr Benjamin Blaise (PhD student, ENS-Lyon)
  • Dr Laetitia Shintu (postdoc ENS-Lyon)


  • "Biological signatures", 2002.
  • "Metabolomics-on-a-chip", 2011.
  • 3 patents filed in Dec''12.


For a full publication list, please click on my publications page, or check out my Researcher ID page and ORCID for recent citation statistics.


Professor Dumas is Director of E-Learning for the Division of Systems Medicine. He teaches in several internal and external courses at Imperial College London, including:

Undergraduate Medicine MBBS/BSc 6-yr course

BSc in Biomedical Sciences

BSc in Pharmacology and Translational Medicine.

Core examiner and lecturer for the MRes in Biomedical Research.

Imperial International Phenome Training Centre's external short courses.

Selected Publications

Journal Articles

Brial F, Chilloux J, Nielsen T, et al., 2021, Human and preclinical studies of the host-gut microbiome co-metabolite hippurate as a marker and mediator of metabolic health., Gut, ISSN:0017-5749

Molinaro A, Bel Lassen P, Henricsson M, et al., 2020, Imidazole propionate is increased in diabetes and associated with dietary patterns and altered microbial ecology, Nature Communications, Vol:11, ISSN:2041-1723

Vieira-Silva S, Falony G, Belda E, et al., 2020, Statin therapy is associated with lower prevalence of gut microbiota dysbiosis, Nature, Vol:581, ISSN:0028-0836, Pages:310-+

Hoyles L, Fernández-Real J-M, Federici M, et al., 2018, Molecular phenomics and metagenomics of hepatic steatosis in non-diabetic obese women., Nat Med, Vol:24, Pages:1070-1080

Hoyles L, Jiménez-Pranteda MJ, Chilloux J, et al., 2018, Metabolic retroconversion of trimethylamine N-oxide and the gut microbiota, Microbiome, Vol:6, ISSN:2049-2618

Plovier H, Everard A, Depommier C, et al., 2017, A purified membrane protein from Akkermansia muciniphila or the pasteurized bacterium improves metabolism in obese and diabetic mice, Nature Medicine, Vol:23, ISSN:1546-170X, Pages:107-113

Shoaie S, Ghaffari P, Kovatcheva-Datchary P, et al., 2015, Quantifying Diet-Induced Metabolic Changes of the Human Gut Microbiome, Cell Metabolism, Vol:22, ISSN:1932-7420, Pages:320-331

Venkatesh M, Mukherjee S, Wang H, et al., 2014, Symbiotic bacterial metabolites regulate gastrointestinal barrier function via the Xenobiotic sensor PXR and toll-like receptor 4, Immunity, Vol:41, ISSN:1074-7613, Pages:296-310

Dumas M-E, Kinross J, Nicholson JK, 2014, Metabolic Phenotyping and Systems Biology Approaches to Understanding Metabolic Syndrome and Fatty Liver Disease, Gastroenterology, Vol:146, ISSN:0016-5085, Pages:46-62

Blaise BJ, Giacomotto J, Elena B, et al., 2007, Metabotyping of Caenorhabditis elegans reveals latent phenotypes, Proceedings of the National Academy of Sciences of the United States of America, Vol:104, ISSN:0027-8424, Pages:19808-19812

Dumas ME, Wilder SP, Bihoreau MT, et al., 2007, Direct quantitative trait locus mapping of mammalian metabolic phenotypes in diabetic and normoglycemic rat models, Nature Genetics, Vol:39, ISSN:1061-4036, Pages:666-672

Dumas M-E, Barton RH, Toye A, et al., 2006, Metabolic profiling reveals a contribution of gut microbiota to fatty liver phenotype in insulin-resistant mice, Proceedings of the National Academy of Sciences of the United States of America, Vol:103, ISSN:0027-8424, Pages:12511-12516

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