Aidan McGlinchey
Aidan McGlinchey Position: Researcher School/office: School of Medical SciencesEmail: YWlkYW4ubWNnbGluY2hleTtvcnUuc2U=
Phone: +46 19 302112
Room: X2217
About Aidan McGlinchey
Aidan McGlinchey started in academia after he graduated in Human Biosciences (1st Class Honours) from Plymouth University in the UK (2008). He was selected for scholarship to Edinburgh University, Scotland, for both Masters by Research (MRes) and PhD simultaneously in Stem Cell Research and Bioinformatics at the Institute for Stem Cell Research (ISCR). There he worked experimentally on genetic engineering to generate plasmids to transform embryonic fibroblasts into induced pluripotent stem cells. His PhD used purely in-silico methods, information theory and large-scale microarray data analysis to gain insight into the transcriptomics of the nature of stem cells, additionally making robust predictions about novel cellular states between so-called “ground state” and “primed” embryonic stem cells; cell states which would later be confirmed to exist experimentally by others.
Following graduation in 2015, he has worked in genome assembly at University College London (UCL), variant calling prediction in cancer and high-throughput transcriptomics at the University of Turku, Finland, before coming to Orebro, Sweden in 2019, to work in the Systems Medicine group.
Research
With the Systems Medicine group, Aidan worked in the area of metabolomics, specifically in the disease areas of non-alcoholic fatty liver disease (NAFLD) now known as metabolic dysfunction associated steatotic liver disease (MASLD) and diabetes, applying the latest bioinformatic analytic methods, branching into machine learning to elucidate key patterns and events in the progression of such metabolic diseases.
Since the middle of 2024, Aidan joined the Rosetta project and consequently has now started and is responsible for the human organoid laboratory at Orebro. Organoids are 3-dimensional cellular aggregates which seek to take on and accurately replicate the function of in vivo organs, with great promise for disease modelling, basic and applied research. The organoid lab is in the early stages of growing intestinal, liver and neural organoids, grown from human induced pluripotent stem cells (hiPSCs), with a view to expanding his lab to include other organs in the future.
These organoids will be used in Aidan’s own research interests, as well as by others in the Systems Medicine group, the Rosetta project and in related collaborative efforts to advance understanding of a plethora of human diseases. Special focus within the school for the uses of these organoids include exposure to environmental toxicants (e.g. PFAS), metabolic disease resulting from genetics and/or lifestyle (e.g. diabetes), gut diseases such as ulcerative colitis (UC) and Crohn’s disease (CD), connecting the gut to the brain through the gut-brain axis working with the Nutrition Gut Brain Interaction (NGBI) group, expanding the scope of our research to the aetiology and progression of neurodegenerative diseases including Alzheimer’s disease (AD) and Parkinson’s disease (PD). Special mention also goes to the progressive degeneration that is the ageing process itself, including answering key questions in the very active field of inflammaging and immunosenescence.
Teaching
On the side, Aidan currently teaches / supervises medical students in their equivalent of problem-based learning (PBL), known as basgrupp, at various stages of the medical course.
Research projects
Active projects
- LITMUS
- Role of environmental exposure in the initiation and progression of non-alcoholic fatty liver disease and insulin resistance
Completed projects
Research groups
Publications
Articles in journals
- Hyötyläinen, T. , McGlinchey, A. J. , Salihovic, S. , Schubert, A. , Douglas, A. , Hay, D. C. , O'Shaughnessy, P. J. , Iredale, J. P. & et al. (2024). In utero exposures to perfluoroalkyl substances and the human fetal liver metabolome in Scotland: a cross-sectional study. The Lancet Planetary Health, 8 (1), e5-e17. [BibTeX]
- Sen, P. , Qadri, S. , Luukkonen, P. K. , Ragnarsdottir, O. , McGlinchey, A. J. , Jäntti, S. , Juuti, A. , Arola, J. & et al. (2022). Exposure to environmental contaminants is associated with altered hepatic lipid metabolism in non-alcoholic fatty liver disease. Journal of Hepatology, 76 (2), 283-293. [BibTeX]
- McGlinchey, A. J. , Govaere, O. , Geng, D. , Ratziu, V. , Allison, M. , Bousier, J. , Petta, S. , de Oliviera, C. & et al. (2022). Metabolic signatures across the full spectrum of non-alcoholic fatty liver disease. JHEP Reports, 4 (5). [BibTeX]
- Sen, P. , Govaere, O. , Sinioja, T. , McGlinchey, A. J. , Geng, D. , Ratziu, V. , Bugianesi, E. , Schattenberg, J. M. & et al. (2022). Quantitative modeling of human liver reveals dysregulation of glycosphingolipid pathways in nonalcoholic fatty liver disease. iScience, 25 (9). [BibTeX]
- Selvaraj, E. A. , Mózes, F. E. , Ajmer Jayaswal, A. N. , Zafarmand, M. H. , Vali, Y. , Lee, J. A. , Levick, C. K. , Joseph Young, L. A. & et al. (2021). Diagnostic accuracy of elastography and magnetic resonance imaging in patients with NAFLD: a systematic review and meta-analysis. Journal of Hepatology, 75 (4), 770-785. [BibTeX]
- Fart, F. , Salihovic, S. , McGlinchey, A. J. , Gareau, M. G. , Oresic, M. , Halfvarson, J. , Hyötyläinen, T. & Schoultz, I. (2021). Perfluoroalkyl substances are increased in patients with late-onset ulcerative colitis and induce intestinal barrier defects ex vivo in murine intestinal tissue. Scandinavian Journal of Gastroenterology, 56 (11), 1286-1295. [BibTeX]
- Hylén, U. , McGlinchey, A. J. , Oresic, M. , Bejerot, S. , Humble, M. B. , Särndahl, E. , Hyötyläinen, T. & Eklund, D. (2021). Potential Transdiagnostic Lipid Mediators of Inflammatory Activity in Individuals With Serious Mental Illness. Frontiers in Psychiatry, 12. [BibTeX]
- McGlinchey, A. J. , Sinioja, T. , Lamichhane, S. , Sen, P. , Bodin, J. , Siljander, H. , Dickens, A. M. , Geng, D. & et al. (2020). Prenatal exposure to perfluoroalkyl substances modulates neonatal serum phospholipids, increasing risk of type 1 diabetes. Environment International, 143. [BibTeX]
- Mehmood, A. , Laiho, A. , Venäläinen, M. S. , McGlinchey, A. J. , Wang, N. & Elo, L. L. (2020). Systematic evaluation of differential splicing tools for RNA-seq studies. Briefings in Bioinformatics, 21 (6), 2052-2065. [BibTeX]
Articles, reviews/surveys
- Sen, P. , Lamichhane, S. , Mathema, V. B. , McGlinchey, A. J. , Dickens, A. M. , Khoomrung, S. & Oresic, M. (2021). Deep learning meets metabolomics: a methodological perspective. Briefings in Bioinformatics, 22 (2), 1531-1542. [BibTeX]
- Alves, M. A. , Lamichhane, S. , Dickens, A. , McGlinchey, A. J. , Ribeiro, H. C. , Sen, P. , Wei, F. , Hyötyläinen, T. & et al. (2021). Systems biology approaches to study lipidomes in health and disease. Biochimica et Biophysica Acta - Molecular and Cell Biology of Lipids, 1866 (2). [BibTeX]
- Oresic, M. , McGlinchey, A. J. , Wheelock, C. E. & Hyötyläinen, T. (2020). Metabolic Signatures of the Exposome-Quantifying the Impact of Exposure to Environmental Chemicals on Human Health. Metabolites, 10 (11). [BibTeX]
Conference papers
- Sen, P. , Govaere, O. , Sinioja, T. , McGlinchey, A. J. , Geng, D. , Ratziu, V. , Bugianesi, E. , Schattenberg, J. & et al. (2021). Genome-scale metabolic modeling of human hepatocytes reveals dysregulation of glycosphingolipid pathways in progressive non-alcoholic fatty liver disease. In: Journal of Hepatology. Paper presented at The International Liver Congress, (Digital congress), June 23–26, 2021. (pp. S256-S256). Elsevier. [BibTeX]
- McGlinchey, A. J. , Geng, D. , Govaere, O. , Ratziu, V. , Bugianesi, E. , Schattenberg, J. M. , Daley, A. , Hyötyläinen, T. & et al. (2021). The Metabolomics of Non-Alcoholic Fatty Liver Disease: Of Networks and Biomarkers. In: Journal of Hepatology. Paper presented at The International Liver Congress, (Digital congress), June 23–26, 2021. (pp. S579-S580). Elsevier. [BibTeX]
- Sen, P. , Govaere, O. , McGlinchey, A. J. , Ratziu, V. , Bugianesi, E. , Schattenberg, J. M. , Allison, M. , Cockell, S. & et al. (2020). Metabolism of human liver on a genome scale in non-alcoholic fatty liver disease. In: Journal of Hepatology. Paper presented at The Digital International Liver Congress (EASL 2020), August 27-29, 2020. (pp. S671-S672). Elsevier. [BibTeX]
- McGlinchey, A. J. , Geng, D. , Govaere, O. , Ratziu, V. , Bugianesi, E. , Schattenberg, J. M. , Daly, A. K. , Hyötyläinen, T. & et al. (2020). Metabolomics approaches to identify biomarkers of nonalcoholic fatty liver disease. In: Journal of Hepatology. Paper presented at The Digital International Liver Congress (EASL 2020), August 27-29, 2020. (pp. S438-S438). Elsevier. [BibTeX]
- Fart, F. , Salihovic, S. , McGlinchey, A. J. , Oresic, M. , Halfvarson, J. , Hyötyläinen, T. & Schoultz, I. (2020). Per- and polyfluoroalkyl substances (PFAS) are significantly increased in patients with late-onset of ulcerative colitis. In: Journal of Crohn's & Colitis. Oxford University Press. [BibTeX]