Imperial College London

Dr. Marc-Emmanuel Dumas

Faculty of MedicineDepartment of Surgery & Cancer

Reader in Translational Systems Medicine



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




128Sir Alexander Fleming BuildingSouth Kensington Campus





Dr. Marc-Emmanuel Dumas, PhD MEng MSc BEng BSc

Dr. Marc-Emmanuel Dumas is Reader in Translational Systems Medicine and convenor of the Department's Section of Biomolecular Medicine (BMM). He was appointed as Lecturer in Systems Biomedicine at Imperial College in 2009 then as Senior Lecturer in 2013 to develop novel research avenues in the field of metabonomics and integrative systems biology, targetting cardiometabolic diseases. He initially joined Imperial College as a Wellcome Trust Research Associate in 2002 to coordinate the metabonomics team of the £5M Wellcome Trust-funded Biological Atlas of Insulin Resistance consortium (BAIR).

Dr. Dumas  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.

Dr. Dumas holds an open-ended appointment as first class CNRS scientist in France. He took his CNRS position at Ecole Normale Supérieure de Lyon in 2007, where he started a metabonomics and systems biology group and was awarded a Young Investigator Award from the Agence Nationale de la Recherche. Dr. Dumas is also Adjunct Professor at McGill University (Montréal, Qc, Canada).

Membership of Societies

Committees and Editorships

Dr. 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). 

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

Awards and funding

Dr. Dumas is funded by MRC, EC-FP7 and The Royal Society. Dr. Dumas also attracted industrial funding from Nestlé (2009-2012) and Institut Mérieux (2011-2014)During his CNRS appointment at ENS-Lyon, Dr. Dumas was awarded a Young Investigator Award from the French Agence Nationale de la Recherche (ANR Jeune Chercheur) and several other ANR grants:


Dr. Dumas is Director of E-Learning for the Division of Computational and Systems Medicine. Dr Dumas also 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.

E-Learning: online course organiser for Imperial International Phenome Training Centre's external short courses, including the Metabonomics short course.


Dr. Dumas’ research interests include metabolomics, quantitative genetics 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 pathologies related to insulin resistance and metabolic syndrome e.g. type 2 diabetes, obesity, 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.

Dr. Dumas’ contribution to insulin resistance research was the identification of a gut microflora – 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, Dr. 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. Dr. 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 metaoblic networks onto protein-protein interaction networks: integrated metabolome and interactome mapping (iMIM).

Dr. 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.

Within the Biomolecular Medicine Section at the Department of Surgery and Cancer, Dr Dumas is research theme leader for “Nutrition, Microbiome & Metabolic Syndrome”, and for "Quantitative Genetics and Network Biology of Metabolic Profiles”.

Dr. Dumas coordinated the Nestlé - Imperial College Research Alliance, a £5M strategic research consortium (2009-2012) targeting the modulation of metabolism and weight management by the gut microbiome.

Dr. Dumas was/is also involved in the following key research consortia:

Current Group memberS

  • Dr. Kanta Chechi (MRC Research Fellow, 2018-2021)
  • Dr. Antonis Myridakis (Postdoc in Translational Metabolomics, 2015-present)
  • Dr. Laura Martinez-Gili (Postdoc in Microbial Metabolome and Neuroinflammation, 2015-present)
  • Ms Flavia Valeo (PhD in Traumatic Brain Injury Metabolomics, 2016-2017) 
  • Mr Michael Olanipekun (PhD in Lung cancer metabolomics, 2018-2021)
  • Dr Alexandre Nuzzo
  • Ms Tatiana Mattio (Mres in Biomedical Research 2018-2019)


  • Dr Julien Chilloux (Postdoc in Microbial Metabolome in CardioMetabolic Diseases, Imperial 2012-present)
  • 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)

POSITIONS (Currently no vacancies)

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

  • NMR-based and MS-based Metabolomics
  • Cell biology, Molecular pharmacology or Physiology
  • Bioinformatics, Network biology or Chemometrics


  • "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 for recent citation statistics.

Selected Publications

Journal Articles

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

Dumas M-E, Rothwell AR, Hoyles L, et al., 2017, Microbial-Host Co-metabolites Are Prodromal Markers Predicting Phenotypic Heterogeneity in Behavior, Obesity, and Impaired Glucose Tolerance, Cell Reports, Vol:20, ISSN:2211-1247, Pages:136-148

Plovier H, Everard A, Druart 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:1078-8956, 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:1550-4131, 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

Russell WR, Hoyles L, Flint HJ, et al., 2013, Colonic bacterial metabolites and human health, Current Opinion in Microbiology, Vol:16, ISSN:1369-5274, Pages:246-254

Davidovic L, Navratil V, Bonaccorso CM, et al., 2011, A metabolomic and systems biology perspective on the brain of the Fragile X syndrome mouse model, Genome Research, Vol:21, ISSN:1088-9051, Pages:2190-2202

Nicholson G, Rantalainen M, Li JV, et al., 2011, A Genome-Wide Metabolic QTL Analysis in Europeans Implicates Two Loci Shaped by Recent Positive Selection, Plos Genetics, Vol:7, ISSN:1553-7404

Nicholson G, Rantalainen M, Maher AD, et al., 2011, Human metabolic profiles are stably controlled by genetic and environmental variation, Molecular Systems Biology, Vol:7, ISSN:1744-4292

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

Martin F-PJ, Dumas M-E, Wang Y, et al., 2007, A top-down systems biology view of microbiome-mammalian metabolic interactions in a mouse model, Molecular Systems Biology, Vol:3, ISSN:1744-4292

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

More Publications