PUBLICATIONS
Primary Research Articles
2024
Ayush Mandwal, Stephanie L. Bishop, Mildred Castellanos, Anika Westlund, George Chaconas, Jörn Davidsen, Ian A. Lewis. MINNO: An Open Source Software for Refining Metabolic Networks and Investigating Complex Network Activity Using Empirical Metabolomics Data. Analytical Chemistry. 2024. doi: 10.1021/acs.analchem.3c04501. PMID: 38359900.
Luis F Ponce, Stephanie L Bishop, Soren Wacker, Ryan A Groves, Ian A Lewis. 2024. SCALiR: A web application for automating absolute quantification of mass spectrometry-based metabolomics data. Analytical Chemistry 96(17):6566-6574. doi:10.1021/acs.analchem.3c04988
Noora Darwish, Mehdi Ashani, Ian A Lewis, Maen M Husein, 2024. Controlled carbonation of Ca(OH)2 surface and its application as an antibacterial particle. Colloids and Surfaces A: Physicochemical and Engineering Aspects 682:132852. doi: 10.1016/j.colsurfa.2023.132852
Cedoljub Bundalovic-Torma, Gang Wang, Sharanya Menon, Sabina Bruehlmann, Lynn Wilsack, Renata Rehak, Sahar Bagheri, Mohammad Banoei, Lawrence Lou, Yasmin Nasser, Matthew Woo, Ian Lewis, Kathy McCoy, Christopher N Andrews. 2024. Targeted and reproducable sampling of the small intestine microbiome with the small intestine microbiome aspirate capsule technology (SIMBA): Clinical validation against endoscopy aspirates and fecal samples in healthy and GI disorder. Gastroenterology 166(5):S-208.
2023
Ian A. Lewis. Boundary Flux Analysis (BFA): an emerging strategy for investigating metabolic pathway activity in large cohorts. Current Opinions in Biotechnology. 2023. 85:10327. doi: 10.1016/j.copbio.2023.10302. PMID: 38061263.
Samira A. Hamed, Armaan Mohan, Saranya Navaneetha Krishnan, Arthur Wang, Marija Drikic, Nicole L. Prince, Ian Lewis, Jane Shearer, Åsa V. Keita, Johan D. Söderholm, Timothy E. Shutt, and Derek M. McKay. Butyrate reduces adherent-invasive E. coli-evoked disruption of epithelial mitochondrial morphology and barrier function: involvement of free fatty acid receptor 3. 2023. Gut Microbes. 15(2):2281011. doi: 10.1080/19490976.2023.2281011. PMID: 38078655
Noora Darwish, Mehdi Asani, Ian A. Lewis, Maen M. Husein. Controlled Carbonation of Ca(OH)2 surface and its application as an antibacterial particle. 2023. Colloids and Surfaces A: Physicochemical and Engineering Aspects. 682: 132852. doi: 10.1016/j.colsurfa.2023.132852
Kirsty Brown, Carolyn A Thomson, Soren Wacker, Marija Drikic, Ryan Groves, Vina Fan, Ian A. Lewis, Kathy D. McCoy. Microbiota alters the metabolome in an age- and sex- dependent manner in mice. 2023. Nature Communications. 14(1):1348. doi: 10.1038/s41467-023-37055-1. PMID: 36906623
Kira L. Tomlinson, Sebastian A. Riquelme SA, Swikrity U. Baskota, Marija Drikic M, Ian R. Monk, Timothy P. Stinear, Ian A. Lewis, Alice S. Prince. Staphylococcus aureus stimulates neutrophil itaconate production that suppresses the oxidative burst. 2023. Cell Rep. 42(2):112064. doi: 10.1016/j.celrep.2023.112064. PMID: 36724077.
Maria J Arzamendi, Adam Shute, Ronald Chan, Manon Defaye, Dominique G Bihan, Ian Lewis, Christophe Altier, Keith A Sharkey, Markus B Geuking, Yasmin Nasser. 2023. Sex-specific gut microbiota differences in post-inflammatory visceral pain. Gastroenterology 164(6):S-9.
Thi Mui Pham, Joshua T Smith, Tatum D Mortimer, Dan Gregson, Soren Wacker, Bruce J Walker, Ashlee Earl, Ian Lewis, Yonatan H Grad. 2023. Changing molecular epidemiology of Staphylococcus aureus bacteremia in a metropolitan area in Canada. Open Forum Infectious Diseases 10(Supplement_2):ofad500.805.
2022
Stephanie L. Bishop, Marija Drikic, Soren Wacker, Yuan Yao Chen, Anita L. Kozyrskyj, Ian A. Lewis. Moving beyond descriptive studies: Harnessing metabolomics to elucidate the molecular mechanisms underpinning host-microbiome phenotypes. 2022. Mucosal Immunology https://doi.org/10.1038/s41385-022-00553-4
Carly C. Chan, Ian A. Lewis. Role of metabolism in uropathogenic Escherichia coli. 2022. Trends in Microbiology https://doi.org/10.1016/j.tim.2022.06.003
Adam Shute, Dominique G. Bihan, Ian A. Lewis, and Yasmin Nasser. Metabolomics: the key to unravelling the role of the microbiome in visceral pain neurotransmission? 2022. Front. Neurosci. https://doi.org/10.3389/fnins.2022.917197
Ryan A. Groves, Carly C. Chan, Spencer D. Wildman, Daniel B. Gregson, Thomas Rydzak, Ian A. Lewis. 2022. Rapid LC-MS assay for targeted metabolite quantification by serial injection into isocratic gradients. Anal. Bioanal. Chem. https://doi.org/10.1007/s00216-022-04384-x
Mehdi Mohammadi, Stephanie L. Bishop, Raied Aburashed, Saad Luqman, Ryan A. Groves, Dominique G. Bihan, Thomas Rydzak, Ian A. Lewis. 2022. Microbial containment device: A platform for comprehensive analysis of microbial metabolism without sample preparation. Frontiers in Microbiology https://doi.org/10.3389/fmicb.2022.958785
Maryam Mapar, Thomas Rydzak, Ryan A. Groves, Ian A. Lewis. 2022. Biomarker enrichment medium: A defined medium for metabolomic analysis of microbial pathogens. Frontiers in Microbiology https://doi.org/10.3389/fmicb.2022.957158
Ryan A. Groves, Maryam Mapar, Raied Aburashed, Luis F. Ponce, Stephanie L. Bishop, Thomas Rydzak, Marija Drikic, Dominique G. Bihan, Hallgrimur Benediktsson, Fiona Clement, Daniel B. Gregson, Ian A. Lewis. 2022. Methods for Quantifying the Metabolic Boundary Fluxes of Cell Cultures in Large Cohorts by High-Resolution Hydrophilic Liquid Chromatography Mass Spectrometry. Analytical Chemistry https://doi.org/10.1021/acs.analchem.2c00078
Tania Wong Fok Lung, Daniel Charytonowicz, Kristin G. Beaumont, Shivang S. Shah, Shwetha H. Sridhar, Claire L. Gorrie, Andre Mu, Casey E. Hofstaedter, David Varisco, Thomas H. McConville, Marija Drikic, Brandon Fowler, Andreacarola Urso, Wei Shi, Dario Fucich, Medini K. Annavajhala, Ibrahim N. Khan, Irina Oussenko, Nancy Francoeur, Melissa L. Smith, Brent R. Stockwell, Ian A. Lewis. Abderrahman Hachani, Swikrity Upadhyay Baskota, Anne-Catrin Uhlemann, Danielle Ahn, Robert K. Ernst, Benjamin P. Howden, Robert Sebra, Alice Prince. 2022. Klebsiella pneumoniae induces host metabolic stress that promotes tolerance to pulmonary infection. Cell Metabolism https://doi.org/10.1016/j.cmet.2022.03.009
Fernando A. Vicentini, Jake C. Szamosi, Laura Rossi, Lateece Griffin, Kristoff Nieves, Dominique Bihan, Ian A. Lewis, Quentin J. Pittman, Mark G. Swain, Michael G. Surette, Simon A. Hirota, Keith A. Sharkey. 2022. Colitis-associated microbiota drives changes in behaviour in male mice in the absence of inflammation. Brain Behavior and Immunity https://doi.org/10.1016/j.bbi.2022.03.001
Thomas Rydzak, Ryan A. Groves, Ruichan Zhang, Raied Aburashed, Rajnigandha Pushpker, Maryam Mapar, Ian A. Lewis. 2022. Metabolic preference assay for rapid diagnosis of bloodstream infections. Nature Communications https://doi.org/10.1038/s41467-022-30048-6
Dominique G. Bihan, Thomas Rydzak, Madeleine Wyss, Keir Pittman, Kathy D. McCoy, Ian A. Lewis. 2022. Method for absolute quantification of short chain fatty acids via reverse phase chromatography mass spectrometry. PLoS One https://doi.org/10.1371/journal.pone.0267093
Arthur Lau, Jennifer J. Rahn, Mona Chappellaz, Hyunjae Chung, Hallgrimur Benediktsson, Dominique Bihan, Anne von Massenhausen, Andreas Linkermann, Craig N. Jenne, Stephen M. Robbins, Donna L. Senger, Ian A. Lewis, Justin Chun, Daniel A. Muruve. 2022. Dipeptidase-1 governs renal inflammation during ischemia reperfusion injury. Science Advances https://doi.org/10.1126/sciadv.abm0142
Maitreyi Raman, Christopher Ma, Lorian M Taylor, Levinus A Dieleman, Georgios V Gkoutos, Jeff K Vallance, Kathy D McCoy, Ian Lewis, Humberto Jijon, Derek M McKay, David M Mutch, Herman W Barkema, Deanna Gibson, Marcus Rauch, Subrata Ghosh. 2022. Crohn's disease therapeutic dietary intervention (CD-TDI): Study protocol for a randomized controlled trial. BMJ Open Gastroenterology 9(1):e00841.
2021
Kayley D. McCubbin, R. Michele Anholt, Ellen de Jong, Jennifer A. Ida, Diego B. Nóbrega, John P. Kastelic, John M. Conly, Matthias Götte, Tim A. McAllister, Karin Orsel, Ian Lewis, Leland Jackson, Graham Plastow, Hans-Joachim Wieden, Kathy McCoy, Myles Leslie, Joan L. Robinson, Lorian Hardcastle, Aidan Hollis, Nicholas J. Ashbolt, Sylvia Checkley, Gregory J. Tyrrell, André G. Buret, Elissa Rennert-May, Ellen Goddard, Simon J. G. Otto, and Herman W. Barkema. Knowledge Gaps in the Understanding of Antimicrobial Resistance in Canada. 2021. Front. Public Health. https://doi.org/10.3389/fpubh.2021.726484
Greta Baggio, Ryan A. Groves, Roberto Chignola, Elena Piacenza, Alessandro Presentato, Ian A. Lewis, Silvia Lampis, Giovanni Vallini, Raymond J. Turner. 2021. Untargeted Metabolomics Investigation on Selenite Reduction to Elemental Selenium by Bacillus mycoides SeITE01. Frontiers in Microbiology https://doi.org/10.3389/fmicb.2021.711000
Adam Shute, Blanca E. Callejas, ShuHua Li, Arthur Wang, Timothy S. Jayme, Christina Ohland, Ian A. Lewis, Brian T. Layden, Andre G. Buret, Derek M. McKay. 2021. Cooperation between host immunity and the gut bacteria is essential for helminth-evoked suppression of colitis. Microbiome https://doi.org/10.1186/s40168-021-01146-2
Anna Laura Voigt, Douglas Andrew Kondro, Diana Powell, Hanna Valli-Pulaski, Mark Ungrin, Jan-Bernd Stukenborg, Claudia Klein, Ian A. Lewis, Kyle E. Orwig, Ina Dobrinkski. 2021. Unique metabolic phenotype and its transition during maturation of juvenile male germ cells. FASEB Journal https://doi.org/10.1096/fj.202002799R
Henrik Almblad, Trevor E. Randall, Fanny Liu, Katherine Leblanc, Ryan A. Groves, Weerayuth Kittichotirat, Geoffrey L. Winsor, Nicolas Fournier, Emily Au, Julie Groizeleau, Jacquelyn D. Rich, Yuefei Lou, Elise Granton, Laura K. Jennings, Larissa A. Singletary, Tara M. L. Winstone, Nathan M. Good, Roger E. Bumgarner, Michael F. Hynes, Manu Singh, Maria Silvina Stietz, Fiona S. L. Brinkman, Ayush Kumar, Ann Karen Cornelia Brassinga, Matthew R. Parsek, Boo Shan Tseng, Ian A. Lewis, Bryan G. Yipp, Justin L. MacCallum, Joe Jonathan Harrison. 2021. Bacterial cyclic diguanylate signaling networks sense temperatures. Nature Communications https://doi.org/10.1038/s41467-021-22176-2
Kira L. Tomlinson, Tania Wong Fok Lung, Felix Dach, Medini K. Annavajhala, Stanislaw J. Gabryszewski, Ryan A. Groves, Marija Drikic, Nancy J. Francoeur, Shwetha H. Sridhar, Melissa L. Smith, Sara Khanal, Clemente J. Britto, Robert Sebra, Ian Lewis, Anne-Catrin Uhlemann, Barbara C. Kahl, Alice S. Prince, Sebastian A. Riquelme . 2021. Staphylococcus aureus induces an itaconate-dominated immunometabolic response that drives biofilm formation. Nature Communications https://doi.org/10.1038/s41467-021-21718-y
2020
Lukas F. Mager, Regula Burkhard, Nicola Pett, Noah C. A. Cooke, Kirsty Brown, Hena Ramay, Seungil Paik, John Stagg, Ryan A. Groves, Marco Gallo, Ian A. Lewis, Markus B. Geuking, Kathy D. McCoy. 2020. Microbiome-derived inosine modulates response to checkpoint inhibitor immunotherapy. Science https://doi.org/10.1126/science.abc3421
Xiyang Dong, Jayne E. Rattray, Calvin D. Campbell, Jamie Webb, Anirban Chakraborty, Oyeboade Adebayo, Stuart Matthews, Carmen Li, Martin Fowler, Natasha M. Morrison, Adam MacDonald, Ryan A. Groves, Ian A. Lewis, Scott H. Wang, Daisuke Mayumi, Chris Greening, Casey R. J. Hubert. 2020. Thermogenic hydrocarbon biodegradation by diverse depth-stratified microbial populations at a Scotian Basin cold seep. Nature Communications https://doi.org/10.1038/s41467-020-19648-2
Leili Rohani, Breanna S. Borys, Golsa Razian, Pooyan Naghsh, Shiying Liu, Adiv A. Johnson, Pranav Machiraju, Heidrun Holland, Ian A. Lewis, Ryan A. Groves, Derek Toms, Paul M. K. Gordon, Joyce W. Li, Tania So, Tiffany Dang, Michael S. Kallos, Derrick E. Rancourt. 2020. Stirred suspension bioreactors maintain naive pluripotency of human pluripotent stem cells. Communications Biology https://doi.org/10.1038/s42003-020-01218-3
Lindsey S. Marmont, Gregory B. Whitfield, Roland Pfoh, Rohan J. Williams, Trevor E. Randall, Alexandra Ostaszewski, Erum Razvi, Ryan A. Groves, Howard Robinson, Mark Nitz, Matthew R. Parsek, Ian A. Lewis, John C. Whitney, Joe J. Harrison, Lynne P. Howell. 2020. TI PelX is a UDP-N-acetylglucosamine C4-epimerase involved in Pel polysaccharide-dependent biofilm formation. J Biological Chemistry https://doi.org/10.1074/jbc.RA120.014555
Nicolas Esquerre, Lilian Basso, Manon Defaye, Fernando A. Vicentini, Nina Cluny, Dominique Bihan, Simon A. Hirota, Alana Schick, Humberto B. Jijon, Ian A. Lewis, Markus B. Geuking, Keith A. Sharkey, Christophe Aitier, Yasmin Nasser. 2020. Colitis-Induced Microbial Perturbation Promotes Postinflammatory Visceral Hypersensitivity. Cellular and Molecular Gastroenterology and Hepatology https://doi.org/10.1016/j.jcmgh.2020.04.003
Breanna S. Borys, Tania So, James Colter, Tiffany Dang, Erin L. Roberts, Tamas Revay, Leila Larijani, Roman Krawetz, Ian Lewis, Bob Argiropoulos, Derrick E. Rancourt, Sunghoon Jung, Yas Hashimura, Brian Lee, Michael S. Kallos. 2020. Optimized serial expansion of human induced pluripotent stem cells using low-density inoculation to generate clinically relevant quantities in vertical-wheel bioreactors. Stem Cells Translational Medicine https://doi.org/10.1002/sctm.19-0406
Madeleine Wyss, Kirsty Brown, Carolyn A. Thomson, Mia Koegler, Fernanda Terra, Vina Fan, Francesca Ronchi, Dominique Bihan, Ian Lewis, Markus B. Geuking, Kathy D. McCoy. 2020. Using Precisely Defined in vivo Microbiotas to Understand Microbial Regulation of IgE. Frontiers in Immunology https://doi.org/10.3389/fimmu.2019.03107
Ian A. Lewis. 2019. Reducing the global burden of infectious diseases through precision infection management (PIM). Sexually Transmitted Infections 95(Suppl 1): A25-A26.
SA Riquelme, K Liimatta, BL Fields, D Yehezkel, R Avraham, G Rosenberg, I Lewis, R Groves, Y Saenz, A Uhlemann, BC Kahl, C Britto, S Khanal, A Prince. 2020. The immunometabolite itaconate induces iron assimilation and biofilm by P. aeruginosa. Pediatric Pulmonology 55:S143-S144
2019
Michael R. Taylor, Kyle L. Flannigan, Hannah Rahim, Amina Mohamud, Ian A. Lewis, Simon A. Hirota, Steven C. Greenway. 2019. Vancomycin relieves mycophenolate mofetil-induced gastrointestinal toxicity by eliminating gut bacterial beta-glucuronidase activity. Science Advances https://doi.org/10.1126/sciadv.aax2358
Xiyang Dong, Chris Greening, Jayne E. Rattray, Anirban Chakraborty, Maria Chuvochina, Daisuke Mayumi, Jan Dolfing, Carmen Li, James M. Brooks, Bernie B. Bernard, Ryan A. Groves, Ian A. Lewis, Casey R. J. Hubert. 2019. Metabolic potential of uncultured bacteria and archaea associated with petroleum seepage in deep-sea sediments. Nature Communications https://doi.org/10.1038/s41467-019-09747-0
Nicolas Esquerre, Lilian Basso, Fernando Vicentini, Nina Cluny, Ian Lewis, Keith A Sharkey, Christophe Altier, Yasmin Nasser. 2019. Antibiotics worsen visceral but not somatic hyperalgesia in a mouse model of post-inflammatory experimental colitis. Gastroenterology 156(6):S-448.
Cynthia H Seow, Humberto Jijon, Ryan A Groves, Nastaran Sharifi, Gurmeet K Bindra, Remo Panaccione, Mark G Swain, Paul L Beck, Ian Lewis, Kathy McCoy. 2019. Urine metabolomic signatures differentiate pregnancy from the non-pregnant state and differ in pregnant patients with Crohn's disease compared with ulcerative colitis. Gastroenterology 156(6):S-891.
T Allain, R Groves, I Lewis, A Buret. 2019. Giardia sp. Metabolome: Towards the identification of new virulence factors. Journal of the Canadian Association of Gastroenterology 2:323-323.
2018
Andrew H. Lee, Satish K. Dhingra, Ian A. Lewis, Maneesh K. Singh, Amila Siriwardana, Seema Dalal, Kelly Rubiano, Matthias S. Klein, Katelynn S. Baska, Sanjeev Krishna, Michael Kiemba, Paul D. Roepe, Manuel Linas, Ceilia R. S. Garcia, David A. Fidock. 2018. Evidence for Regulation of Hemoglobin Metabolism and Intracellular Ionic Flux by the Plasmodium falciparum Chloroquine Resistance Transporter. Scientific Reports https://doi.org/10.1038/s41598-018-31715-9
Kyle L. Flannigan, Michael R. Taylor, Sheldon K. Pereira, Jimena Rodriguez-Arguello, Andrew W. Moffat, Laurie Alston, Xuemei Wang, Karen K. Poon, Paul L. Beck, Kevin P. Rioux, Mahesh Jonnalagadda, Prasanth K. Chelikani, Heather J. Galipeau, Ian A. Lewis, Matthew L. Workentine, Steven G. Greenway, Simon A. Hirota. 2018. An intact microbiota is required for the gastrointestinal toxicity of the immunosuppressant mycophenolate mofetil. J Heart and Lung Transplantation https://doi.org/10.1016/j.healun.2018.05.002
Jean-Paul Motta, Thibault Allain, Luke E. Green-Harrison, Ryan A. Groves, Troy Feener, Hena Ramay, Paul L. Beck, Ian A. Lewis, John L. Wallace, Andre G. Buret. 2018. Iron Sequestration in Microbiota Biofilms As A Novel Strategy for Treating Inflammatory Bowel Disease. Inflammatory Bowel Diseases https://doi.org/10.1093/ibd/izy116
Daniel Schober, … Matthias S. Klein*, Ian A. Lewis, Claudio Luchinat, Andy R. Jones, Arturas Grauslys, Martin Larralde, Masashi Yokochi, Naohiro Kobayashi, Andrea Porzel, Julian L. Griffin, Mark R. Viant, David S. Wishart, Christoph Steinbeck, Reza M. Salek, Steffen Neumann. nmrML: a community supported open data standard for the description, storage, and exchange of NMR data. 2018. Analytical Chemistry PMID: 29035042
Thibault Allain, Ryan Groves, Ian A Lewis, Andre G Buret. 2018. The metabolomic signature of Giardia sp. The FASEB Journal 32:406.3-406.3
2017
Wenyun Lu, Xiaoyang Su, Matthias S. Klein*, Ian A. Lewis, Oliver Fiehn, Joshua D. Rabinowitz. Metabolite Measurement: Pitfalls to Avoid and Practices to Follow. 2017. Annual review of Biochemistry PMID: 28654323
Jurre J. Kamphorst and Ian A. Lewis. Editorial overview: Recent innovations in the metabolomics revolution. 2017. Current Opinion in Biotechnology PMID: 28126441
Travis S. Bingeman*, David H. Perlman*, Douglas G. Storey, and Ian A. Lewis. Digestomics: an emerging strategy for comprehensive analysis of protein catabolism. 2017. Current Opinion in Biotechnology. Current Opinion in Biotechnology PMID: 28025112
L Rohani, G Meng, P Machiraju, S Liu, J Wu, I Kovalchuk, I Lewis, T Shutt, A Khan, D Rancourt, S Greenway. 2017. Modeling the dilated cardiomyopathy with ataxia syndrome (DCMA), a pediatric mitrochondrial cardiomyopathy, using cardiomyocytes derived from induced pluripotent stem cells. Canadian Journal of Cardiology 33(10):S163-S164.
2016 and prior
Perrin H. Beatty, Matthias S. Klein*, Jeffrey J. Fischer, Ian A. Lewis, Douglas G. Muench, and Allen G. Good. Understanding Plant Nitrogen Metabolism Through Metabolomics and Computational Approaches. 2016. Plants PMID: 27735856
Stanislaw J. Gabryszewski, Satish K. Dhingra, Jill M. Combrinck, Peter J. Smith, Paul S. Callaghan, Matthew R. Hassett, Amila Siriwardana, Lise Musset, Ian A. Lewis, Manuel Llinás, Timothy J. Egan, Paul D. Roepe, David A. Fidock. 2016. Evolution of a Fitness Cost-Neutral Mutant of PfCRT Conferring P. falciparum 4-Aminoquinoline Drug Resistance is Accompanied by Altered Parasite Metabolism and Digestive Vacuole Physiology. PLOS Pathogens PMID: 27832198
Hangjun Ke†, Ian A. Lewis†, Joanne M. Morrisey, Kyle J. McLean, Suresh M. Ganesan, Heather J. Painter, Michael W. Mather, Marcelo Jacobs-Lorena, Manuel Llinás, Akhil B. Vaidya. Genetic investigation of TCA metabolism during the Plasmodium falciparum lifecycle. 2015. Cell Reports †Equal contributions PMID: 25843709
Ludmilla Aristilde, Ian A. Lewis, and Joshua D. Rabinowitz. 2015. Hierarchical Metabolism of Hemicellulosic Pentose Sugars in Clostridium Acetobutylicum. Applied and Environmental Microbiology PMID: 25527534
Ian A. Lewis, Mark Wacker, Kellen L. Olszewski, Simon A. Cobbold, Katelynn S. Baska*, Asako Tan, Michael T. Ferdig, and Manuel Llinás. Metabolic QTL analysis links chloroquine resistance in Plasmodium falciparum to impaired hemoglobin catabolism. 2014. PMID: 24391526
Simon A. Cobbold, Ashley M. Vaughan, Ian A. Lewis, Heather J. Painter, Nelly Camargo, David Perlman, Matthew Fishbaugher, Julie Healer, Alan Cowman, Stefan H. Kappe, and Manuel Llinás. Kinetic flux profiling elucidates two independent acetyl-CoA metabolic pathways in Plasmodium falciparum. 2013. Journal of Biological Chemistry PMID: 24163372
Klein Y. Eili, Ian A. Lewis, Christina Jung, Manuel Llinás, and Simon A Levin. 2012. Relationship between treatment-seeking behaviour and artemisinin drug quality in Ghana. Malaria Journal PMID: 22482747
James J. Ellinger, Daniel C. Miller*, Ian A. Lewis, and John L. Markley. Semi-automated device for batch extraction of metabolites from tissue samples. 2012. Analytical Chemistry PMID: 22292466
James J. Ellinger, Ian A. Lewis, and John L. Markley. Role of aminotransferases in glutamate metabolism of human erythrocytes. 2011. Journal of Biomolecular NMR PMID: 21380856
Ian A. Lewis, Ryan H. Karsten*, Mark E. Norton, Marco Tonelli, William M. Westler and John L. Markley. NMR Method for Measuring Carbon-13 Isotopic Enrichment of Metabolites in Complex Solutions. 2010. Analytical Chemistry PMID: 20459129
Ian A. Lewis, Seth C. Schommer*, and John L. Markley. rNMR: open source software for identifying and quantifying metabolites in NMR spectra. 2009. Magnetic Resonance in Chemistry PMID: 19821464
Ian A. Lewis, M. Estela Campanella, John L. Markley and Philip S. Low. Role of Band 3 in regulating metabolic flux of red blood cells. 2009. Proceedings of the National Academy of Sciences USA PMID: 19846781
Qiu Cui, Ian A. Lewis, Adrian D. Hegeman, Mark E. Anderson, Jing Li, Christopher F. Schulte, William M. Westler, Hamid R. Eghbalnia, Michael R. Sussman, and John L. Markley. Metabolite identification via the Madison Metabolomics Consortium Database. 2008. Nature Biotechnology PMID: 18259166
Ian A. Lewis, Seth C. Schommer*, Brendan Hodis*, Kate A. Robb*, Marco Tonelli, William M. Westler, Michael R. Sussman and John L. Markley. Method for Determining Molar Concentrations of Metabolites in Complex Solutions from Two-Dimensional 1H-13C NMR Spectra. 2007. Analytical Chemistry PMID: 17985927
Adrian D. Hegeman, Christopher F. Schulte, Qiu Cui, Ian A. Lewis, Edward L. Huttlin, Hamid Eghbalnia, Amy C. Harms, Eldon L. Ulrich, John L. Markley, and Michael R. Sussman. Stable Isotope Assisted Assignment of Elemental Compositions for Metabolomics. 2007. Analytical Chemistry PMID: 17708672
John L. Markley, Mark E. Anderson, Qiu Cui, Hamid R. Eghbalnia, Ian A. Lewis, Adrian D. Hegeman, Jing Li, Christopher F. Schulte, Michael R. Sussman, William M. Westler, Eldon L. Ulrich and Zsolt Zolnai. New bioinformatics resources for metabolomics. 2007. Pacific Symposium on Biocomputing PMID: 17990489
Book Chapters
Ian A. Lewis, Michael R. Shortreed, Adrian D. Hegeman, and John L. Markley. Novel NMR and MS approaches to metabolomics. 2012. The Handbook of Metabolomics. Methods in Pharmacology and Toxicology, Vol. 17. Humana Press
Patents
Provisional Patent Application. Biohazard Containment Device. Application: 63007787, Filed 04/09/2020.
Provisional Patent. Metabolomic characterization of microorganisms. PCT/CA2019/051351, Filed: 09/20/2019
Provisional Patent. Method for detecting urinary tract infections and sample analysis using liquid chromatography. Application: WO 2019/227235A1, Filed: 06/01/2018
Patent. Device, method, and system for identifying organisms and determining their sensitivity to toxic substances using changes in the concentrations of metabolites present in nutrient media. Application: WO 2018/165751, Filed: 03/13/2017
Patent. Method and system for determining compound concentrations in a mixture using regression of NMR intensity peak values. United States. US 7,847,547 B2. Issued: 12/07/2010.
Disclosure. Extraction Contraption, an integrated sample homogenization, extraction, filtration and lyophilization device. Disclosed to WARF 06/08/2009.
License. Automated filtering of NMR spectra (AFNS), a multivariate tool for biomarker discovery. Licensed by BioRad for use in their KnowItAll® software package. 11/2006.
Dissertations and Theses
Lewis IA. Novel methods for identifying and quantifying metabolites in complex biological extracts by multidimensional nuclear magnetic resonance spectroscopy [dissertation]. [Madison (WI)]: University of Wisconsin-Madison; 2010. 226 p.
Nguyen A. Critically re-evaluating carbohydrate metabolism in Pseudomonas aeruginosa. [master’s thesis]. [Calgary, Canada] University of Calgary; 2019. 83 p.
King MA. A novel association between glutamine metabolism and clinical progression in DCMA, a mitochondrial cardiomyopathy. [master’s thesis]. [Calgary, Canada] University of Calgary; 2020. 113 p.