Luke’s CV

I am a diabetes epidemiologist, R user and developer, teacher of modern data science and analysis skills, and open science advocate.

Education

2013 – 2017 PhD in Nutritional Sciences, University of Toronto in Toronto, CA
2011 – 2013 MSc in Nutritional Sciences, University of Toronto in Toronto, CA
2005 – 2010 BSc in Kinesiology, University of Waterloo in Waterloo, CA

Affiliations

2021 – present Researcher, Department of Clinical Medicine, Aarhus University in Aarhus, Denmark
2021 – present Instructor, RStudio Certified Instructor in Boston, USA
2020 – present Member, European Association for the Study of Diabetes in Düsseldorf, Germany
2018 – present Member, Danish Diabetes Academy in Denmark
2015 – present Instructor and member, Software Carpentry in Global
2019 – 2021 Researcher, Department of Public Health, Aarhus University in Aarhus, Denmark
2016 – 2018 Treasurer, UofT Coders, University of Toronto & Mozilla Science Lab in Toronto, Canada
2014 – 2017 Treasurer, Nutritional Sciences Graduate Student Association, University of Toronto in Toronto, Canada

Publications

  1. ‘Dihydroceramide- and ceramide-profiling provides insights into human cardiometabolic disease etiology’. C. Wittenbecher, R. Cuadrat, L. Johnston, F. Eichelmann, S. Jäger, O. Kuxhaus, M. Prada, F. Del Greco M., A. A. Hicks, P. Hoffman, J. Krumsiek, F. B. Hu, M. B. Schulze. (2022). DOI: 10.1038/s41467-022-28496-1.
  2. ‘Escaping irreproducible research practices and spreading awareness through education and (re-)training’. Bettina Lengger, Luke W. Johnston. (2022). DOI: 10.1042/bio_2022_103.
  3. ‘Metabolomic profiling of the Dietary Approaches to Stop Hypertension diet provides novel insights for the nutritional epidemiology of type 2 diabetes mellitus’. Shahen Yashpal, Angela D. Liese, Beatrice A. Boucher, Lynne E. Wagenknecht, Steven M. Haffner, Luke W. Johnston, Richard P. Bazinet, Marian Rewers, Jerome I. Rotter, Steve M. Watkins, Anthony J. Hanley. (2021). DOI: 10.1017/s0007114521003561.
  4. ‘r-cubed: Guiding the overwhelmed scientist from random wrangling to Reproducible Research in R’. Luke Johnston, Helene Juel, Bettina Lengger, Daniel Witte, Hannah Chatwin, Malene Christiansen, Anders Isaksen. (2021). DOI: 10.21105/jose.00122.
  5. ‘Next generation diabetes scientists shape global research culture’. M. M. Broadley, A. Gonzalez-Franquesa, A. Jonsson, C. B. Christiansen, G. D. Carrasquilla, A. Mamidi, S. M. Ghiasi, H. B. Juel, S. Falk, M. S. Isidor, P. Aldiss, L. Gillberg, K. Carolo dos Santos, R. Sabaratnam, L. O. Huang, J. S. Quist, J. R. Knudsen, S. Poulsen, R. Quaranta, M. Tozzi, R. B. Mikkelsen, M. K. Andersen, M. Dall, A. B. Møller, M. H. Drag, S. Panahi, C. L. Lyons, L. Small, A. Altıntaş, P. Poursharifi, B. Osborne, A. K. Sarvari, L. W. Johnston, M. H. Solheim, I. M. Modvig, A. S. Husted, N. Z. Jespersen, E. L. Brown, E. Bak, A. Peluso, F. Finger, K. V. Grunddal, K. Rupar, H. T. Vistisen, J. B. Henningsen, T. Ma, M. Hauge Pedersen, K. Plucinska, S. L. Jepsen, G. Repasky. (2020). DOI: 10.1111/apha.13455.
  6. ‘Effect of familial diabetes status and age at diagnosis on type 2 diabetes risk: a nation-wide register-based study from Denmark’. Omar Silverman-Retana, Adam Hulman, Jannie Nielsen, Claus T. Ekstrøm, Bendix Carstensen, Rebecca K. Simmons, Lasse Bjerg, Luke W. Johnston, Daniel R. Witte. (2020). DOI: 10.1007/s00125-020-05113-8.
  7. ‘A graduate student-led participatory live-coding quantitative methods course in R: Experiences on initiating, developing, and teaching’. Luke Johnston, Madeleine Bonsma-Fisher, Joel Ostblom, Ahmed Hasan, James Santangelo, Lindsay Coome, Lina Tran, Elliott De Andrade, Sara Mahallati. (2019). DOI: 10.21105/jose.00049.
  8. ‘The Distribution of Fatty Acid Biomarkers of Dairy Intake across Serum Lipid Fractions: The Prospective Metabolism and Islet Cell Evaluation (PROMISE) Cohort’. Ingrid D. Santaren, Richard P. Bazinet, Zhen Liu, Luke W. Johnston, John L. Sievenpiper, Adria Giacca, Ravi Retnakaran, Stewart B. Harris, Bernard Zinman, Anthony J. Hanley. (2019). DOI: 10.1002/lipd.12185.
  9. ‘The macrophage activation marker soluble CD163 is longitudinally associated with insulin sensitivity and β-cell function’. Zhila Semnani-Azad, Philip W Connelly, Luke W Johnston, Ravi Retnakaran, Stewart B Harris, Bernard Zinman, Anthony J Hanley. (2019). DOI: 10.1210/clinem/dgz166.
  10. ‘Associations of Calcium from Food Sources versus Phosphate Binders with Serum Calcium and FGF23 in Hemodialysis Patients’. Sara Mahdavi, Antonio Bellasi, Karan Nagra, Luke Johnston, Paul Tam, Biagio Di Iorio, Tabo Sikaneta. (2019). DOI: 10.3390/jcm8101680.
  11. ‘Determinants of longitudinal change in insulin clearance: the Prospective Metabolism and Islet Cell Evaluation cohort’. Zhila Semnani-azad, Luke W Johnston, Christine Lee, Ravi Retnakaran, Philip W Connelly, Stewart B Harris, Bernard Zinman, Anthony J Hanley. (2019). DOI: 10.1136/bmjdrc-2019-000825.
  12. ‘Clusters of fatty acids in the serum triacylglyceride fraction associate with the disorders of type 2 diabetes’. Luke W. Johnston, Zhen Liu, Ravi Retnakaran, Bernard Zinman, Adria Giacca, Stewart B. Harris, Richard P. Bazinet, Anthony J. Hanley. (2018). DOI: 10.1194/jlr.P084970.
  13. ‘Association of non-esterified fatty acid composition with insulin sensitivity and beta cell function in the Prospective Metabolism and Islet Cell Evaluation (PROMISE) cohort’. Luke W. Johnston, Stewart B. Harris, Ravi Retnakaran, Adria Giacca, Zhen Liu, Richard P. Bazinet, Anthony J. Hanley. (2017). DOI: 10.1007/s00125-017-4534-6.
  14. ‘Longitudinal associations of phospholipid and cholesteryl ester fatty acids with disorders underlying diabetes.’. Luke W. Johnston, Stewart B. Harris, Ravi Retnakaran, Bernard Zinman, Adria Giacca, Zhen Liu, Richard P. Bazinet, Anthony J. Hanley. (2016). DOI: 10.1210/jc.2015-4267.
  15. ‘Short leg length, a marker of early childhood deprivation, is associated with metabolic disorders underlying type 2 diabetes mellitus: the PROMISE cohort study’. L. W. Johnston, S. B. Harris, R. Retnakaran, H. C. Gerstein, B. Zinman, J. Hamilton, A. J. Hanley. (2013). DOI: 10.2337/dc13-0254.
  16. ‘Low-income countries’ orthopaedic information needs: Challenges and opportunities’. K. Doughty, L. Rothman, L. Johnston, K. Le, J. Wu, A. Howard. (2010). DOI: 10.1007/s11999-010-1365-x.

Books

  1. ‘Research Software Engineering with Python’. Damien Irving, Kate Hertweck, Luke Johnston, Joel Ostblom, Charlotte Wickham. (2021). URL: https://merely-useful.tech/py-rse/. ISBN: 0367698323.

Presentations

  1. (Oral) ‘NetCoupler: Inferring causal pathways between high-dimensional metabolic data and external factors’. Luke W. Johnston, Clemens Wittenbecher, Fabian Eichelmann. Annual useR Conference in Virtual (2021).
  2. (Contributed) ‘r-cubed: Guiding the overwhelmed scientist from random wrangling to Reproducible Research in R’. Hannah Chatwin, Luke W Johnston, Helene Bæk Juel, Bettina Lengger, Daniel R. Witte, Malene Revsbech Christiansen, Anders Aasted Isaksen. Annual useR Conference in Virtual (2021).
  3. (Oral) ‘NetCoupler: Inferring causal pathways between high-dimensional metabolic data and external factors’. Luke W. Johnston, Clemens Wittenbecher. Annual Meeting of the Danish Epidemiological Society in Virtual (2021).
  4. (Oral) ‘How I Teach Life Scientists About Reproducibility and Data Analysis Using R’. Luke W. Johnston. Life Science Trainers Talk Series “How I Teach Life Scientists…” in Virtual (2021).
  5. (Oral poster) ‘The metabolic pathways between components of stature and HbA (1c): a causal structure learning approach in the UK Biobank’. LW Johnston, C Wittenbecher, HT Vistisen, CC Dahm, DR Witte. European Association for the Study of Diabetes Annual Meeting in virtual setting (2020).
  6. (Oral) ‘NetCoupler: Inferring causal pathways between high-dimensional metabolic data and external factors’. L. W. Johnston, C. Wittenbecher. IARC Nutritional Methodology and Biostatistics Group in Virtual (2020).
  7. (Oral poster) ‘A data-driven approach at characterizing heterogeneity in neuropathy assessments’. Luke Johnston, Signe Toft Andersen, Morten Charles, Marit E. Jørgensen, Troels S. Jensen, Lasse Bjerg, Daniel R. Witte. European Diabetes Epidemiology Group Annual Meeting in Mondorf-les-Bains, Luxembourg (2019). DOI: 10.6084/M9.FIGSHARE.8082491.V1.
  8. (Contributed) ‘Adipose Tissue Insulin Resistance and Inflammation Are Independently Associated With Dysglycemia’. Zhila Semnani-Azad, Philip W Connelly, Ravi Retnakaran, Stewart B Harris, Bernard Zinman, Luke W Johnston, Richard P Bazinet, Anthony J Hanley. ObesityWeek in Las Vegas, USA (2019).
  9. (Oral poster) ‘Specific clusters of fatty acids (FA) across multiple serum lipid fractions underlie pathophysiological features of type 2 diabetes in the Canadian Prospective Metabolism and Islet Cell Evaluation (PROMISE) cohort’. Luke W. Johnston, Zhen Liu, Ravi Retnakaran, Stewart B. Harris, Richard P. Bazinet, Anthony J. Hanley. European Diabetes Epidemiology Group Annual Meeting in Helsingør, Denmark (2018). DOI: 10.6084/m9.figshare.6159293.
  10. (Contributed) ‘Longitudinal Associations of Soluble CD163 with Insulin Sensitivity and Beta-Cell Function: The Prospective Metabolism and Islet Cell Evaluation (PROMISE) Cohort’. Zhila Semnani-Azad, Phil W. Connelly, Luke W. Johnston, Ravi Retnakaran, Stewart B Harris, Bernard Zinman, Anthony J Hanley. European Diabetes Epidemiology Group Meeting in Helsingør, Denmark (2018).
  11. (Contributed) ‘Combining dietary and biomarker data to evaluate associations of dairy intake with risk of type 2 diabetes (T2DM): The PROspective Metabolism and ISlet cell Evaluation (PROMISE) cohort’. Ingrid D. Santaren, Richard P. Bazinet, Zhen Liu, Luke W. Johnston, Ravi Retnakaran, Stewart B. Harris, Bernard Zinman, Anthony J. Hanley. European Diabetes Epidemiology Group Annual Meeting in Helsingør, Denmark (2018).
  12. (Oral) ‘An R toolkit to simplify and automate an open scientific workflow’. Luke W. Johnston. European R User Meeting in Budapest, Hungary (2018).
  13. (Oral poster) ‘Leg length, a marker of early childhood conditions, associates with specific clusters of serum fatty acids’. Luke W. Johnston, Liu Zhen, Ravi Retnakaran, Stewart B Harris, Bernard Zinman, Richard P. Bazinet, Anthony J. Hanley. Annual Meeting of the European Association for the Study of Diabetes in Berlin, Germany (2018).
  14. (Panel) ‘Community Building’. Daniela Saderi, Grant R. Vousden-Dishington, Lucy Patterson, Luke Johnston. Working Open Workshop, Mozilla Science Lab in Montreal, Canada (2017).
  15. (Contributed) ‘Serum Fatty Acids Derived from Dairy Consumption Are Associated with Longitudinal Changes in Insulin Sensitivity and Beta-cell Function: The Prospective Metabolism and Islet Cell Evaluation (PROMISE) Cohort’. I. D. Santaren, R. Bazinet, Z. Liu, L. W. Johnston, R. Retnakaran, S. B. Harris, B. Zinman, A. J. Hanley. 35ᵗʰ International Symposium on Diabetes and Nutrition in Skagen, Denmark (2017).
  16. (Contributed) ‘Longitudinal Associations of Soluble CD163 with Insulin Sensitivity and Beta-Cell Function: The Prospective Metabolism and Islet Cell Evaluation (PROMISE) Cohort’. Z. Semnani-Azad, P. W. Connelly, L. W. Johnston, R. Retnakaran, S. B. Harris, B. Zinman, A. J. Hanley. 4th Annual BBDC-Joslin-UCPH Conference in Toronto, Canada (2017).
  17. (Contributed) ‘Determinants of Longitudinal Change in sCD163, a Biomarker of Adipose Tissue Macrophage Activation’. Zhila Semnani-Azad, Philip W Connelly, Luke W Johnston, Anthony J Hanley. ObesityWeek in Washington, DC, USA (2017).
  18. (Contributed) ‘Study Groups - Crossing the Boundaries of Discipline’. Madeleine Bonsma, Lina Tran, Lindsay Coome, Luke Johnston. Mozilla Festival in London, UK (2016).
  19. (Oral) ‘Serum Non-Esterified Fatty Acid (NEFA) Concentrations are Associated with Longitudinal Progression of Beta-Cell Dysfunction: Prospective Metabolism and Islet Cell Evaluation (PROMISE) Cohort’. L. W. Johnston, C. Lee, S. B. Harris, R. Retnakaran, B. Zinman, R. P. Bazinet, A. J. Hanley. 33rd International Symposium on Diabetes & Nutrition in Toronto, Canada in Toronto, Canada (2015). DOI: 10.6084/m9.figshare.1545567.
  20. (Poster) ‘Serum Non-Esterified Fatty Acid (NEFA) Composition and Longitudinal Associations with Beta-Cell Dysfunction’. Luke W. Johnston, Christine Lee, Stewart B. Harris, Ravi Retnakaran, Bernard Zinman, Richard P. Bazinet, Anthony J. Hanley. International Diabetes Federation World Diabetes Congress in Vancouver, Canada (2015).
  21. (Oral) ‘Serum Phospholipid (PL) Fatty Acid Composition Predicts Declines in Insulin Sensitivity (IS) and Beta-Cell Function Over 6-years in the Prospective Metabolism And Islet Cell Evaluation (PROMISE) Cohort’. Luke W. Johnston, Christine Lee, Stewart Harris, Ravi Retnakaran, Bernard Zinman, Richard P. Bazinet, Anthony J. Hanley. International Diabetes Epidemiology Group Scientific Meeting in Vancouver, Canada (2015).
  22. (Oral) ‘Lower Serum Non-Esterified Eicosapentaenoic Acid (EPA) is Associated with Insulin Resistance in the PROspective Metabolism and ISlet Cell Evaluation (PROMISE) Cohort’. L. W. Johnston, S. Kayaniyil, C. Lee, S. B. Harris, R. Retnakaran, B. Zinman, R. P. Bazinet, A. J. Hanley. Biennial Congress of the International Society for the Study of Fatty Acids and Lipids in Stockholm, Sweden (2014).
  23. (Contributed) ‘Secondhand Smoke in Common Spaces of Public Housing – Findings from Waterloo Region’. R. D. Kennedy, L. W. Johnston, C. Munhall, S. Filsinger. 7th National Conference on Tobacco or Health, Making the Connection: Knowledge Transforming Health in Waterloo, Canada (2011).
  24. (Contributed) ‘An Environmental Scan of Tobacco-free Policies of YMCA & YWCA Locations in Ontario, Canada’. C. Munhall, R. W. Kennedy, L. W. Johnston, E. Steibelt, A. Trusler. 17th Annual Meeting of the Society on Research on Nicotine and Tobacco in Toronto, Canada (2011).
  25. (Contributed) ‘Probability of Multiple Fractures in Childhood Session’. A. W. Howard, L. Johnston, L. Rothman. Safety 2010 World Conference in London, UK (2010).
  26. (Oral) ‘Report of the Smoke-free Policy Scan of YMCAs and YWCAs in Ontario’. R. D. Kennedy, L. Johnston. Meeting of the Tobacco-free Sports and Recreation Community of Practice in Waterloo, Canada (2010).
  27. (Contributed) ‘Experimental Evaluation of Outdoor and Adjacent Indoor Tobacco Smoke Pollution in Doorways’. R. D. Kennedy, L. W. Johnston, G. T. Fong, A. Hyland, M. Travers. 14th World Conference on Tobacco or Health in Mumbai, India (2009).
  28. (Poster) ‘An Environmental Scan of Tobacco Control Policies on University Campuses in Ontario’. L. Johnston, R. D. Kennedy, G. T. Fong. Tobacco Control for the 21st Century in Toronto, Canada (2008).
  29. (Contributed) ‘Experimental Evaluation of Tobacco Control Policies in Outdoor Environments’. R. D. Kennedy, G. T. Fong, M. Travers, A. Hyland, L. Johnston, S. Mutti. Tobacco Control for the 21st Century in Toronto, Canada (2008).
  30. (Contributed) ‘Metabolomic Profiling of the Dietary Approaches to Stop Hypertension (DASH) Diet: Novel Insights for the Nutritional Epidemiology of Type 2 Diabetes Mellitus (T2DM)’. Shahen Yashpal, Angela D. Liese, Lynne E. Wagenknecht, Steven M. Haffner, Luke W. Johnston, Beatrice Boucher, Richard P. Bazinet, Marian Rewers, Jerome I. Rotter, Steve M. Watkins, Anthony Hanley. (2019). DOI: 10.2337/db19-1576-p.
  31. (Contributed) ‘Urinary Vitamin D Binding Protein as a Potential Biomarker for Nephropathy in Subjects at Risk for Type 2 Diabetes: The Prospective Metabolism and Islet Cell Evaluation (PROMISE) Cohort Study.’. Windy Z.N. Wang, David E. Cole, Luke W. Johnston, Betty Y.L. Wong, Lei Fu, Ravi Retnakaran, Stewart B. Harris, Bernard Zinman, Anthony J. Hanley.. (2017). DOI: 10.2337/db17-1489-1795.
  32. (Poster) ‘Fatty Acids Produced by De Novo Lipogenesis (DNL) of Refined Carbohydrates are Associated with Worsening of Metabolic Syndrome (MetS) Components: The Prospective Metabolism and Islet Cell Evaluation (PROMISE) Cohort’. Luke W. Johnston, Ravi Retnakaran, Stewart B. Harris, Zhen Liu, Richard P. Bazinet, Anthony J. Hanley. (2017). DOI: 10.2337/db17-1489-1795.
  33. (Contributed) ‘Longitudinal Associations of Soluble CD163 with Insulin Sensitivity and Beta-Cell Function: The Prospective Metabolism and Islet Cell Evaluation (PROMISE) Cohort’. Z. Semnani-Azad, P. W. Connelly, L. W. Johnston, R. Retnakaran, S. B. Harris, B. Zinman, A. J. Hanley. (2017). DOI: 10.2337/db17-1489-1795.
  34. (Poster) ‘Triglyceride Fatty Acid (TGFA) Composition Longitudinally Associates with Changes in Insulin Sensitivity (IS) and Beta-Cell Function Over 6-yrs in the Prospective Metabolism and Islet Cell Evaluation (PROMISE) Cohort’. Luke W. Johnston, Ravi Retnakaran, Stewart Harris, Bernard Zinman, Zhen Liu, Richard P. Bazinet, Anthony J. Hanley. (2016). DOI: 10.2337/db16-1375-1656.
  35. (Contributed) ‘Serum Fatty Acids Derived from Dairy Consumption Are Associated with Insulin Sensitivity and Beta-cell Function: The PROspective Metabolism and ISlet Cell Evaluation (PROMISE) Cohort’. Ingrid D. Santaren, Richard P. Bazinet, Zhen Liu, Luke W. Johnston, Ravi Retnakaran, Stewart B. Harris, Bernard Zinman, Anthony J. Hanley. (2016). DOI: 10.2337/db16-1-381.
  36. (Contributed) ‘Multivariate Determinants of Reduced Insulin Clearance in Prospective Metabolism and Islet Cell Evaluation (PROMISE) Cohort’. Zhila Semnani-Azad, Luke W. Johnston, Stewart B. Harris, Ravi Retnakaran, Bernard Zinman, Philip W. Connelly, Anthony J. Hanley.. (2016). DOI: 10.2337/db16-1375-1656.
  37. (Oral poster) ‘Serum Non-Esterified Fatty Acid (NEFA) Concentration is Associated with Longitudinal Progression of Beta-Cell Dysfunction: Prospective Metabolism and Islet Cell Evaluation (PROMISE) Cohort’. Luke W. Johnston, Christine Lee, Stewart B. Harris, Ravi Retnakaran, Bernard Zinman, Richard P. Bazinet, Anthony J. Hanley. (2015). DOI: 10.6084/m9.figshare.1545566.
  38. (Poster) ‘Lower Serum Non-Esterified Eicosapentaenoic Acid (EPA) Is Associated with Insulin Resistance: PROspective Metabolism and ISlet Cell Evaluation (PROMISE) Cohort’. L. W. Johnston, S. Kayaniyil, C. Lee, S. B. Harris, R. Retnakaran, B. Zinman, R. P. Bazinet, A. J. Hanley. (2014).
  39. (Poster) ‘The association of leg length with metabolic abnormalities underlying type 2 diabetes mellitus: The PROMISE cohort’. L. W. Johnston, S. B. Harris, R. Retnakaran, H. C. Gerstein, J. Hamilton, B. Zinman, A. J. Hanley. (2013).

R packages

2022 NetCoupler: Inference of Causal Links Between a Network and an External Variable (creator), CRAN
2014 broom: Convert Statistical Objects into Tidy Tibbles (contributor), CRAN
2016 prodigenr: Research Project Directory Generator (creator), CRAN
2016 mason: Build Data Structures for Common Statistical Analysis (creator), CRAN
2019 posterdown: Generate PDF Conference Posters Using R Markdown (contributor), CRAN
2016 carpenter: Build Common Tables of Summary Statistics for Reports (creator), CRAN

Teaching

2020 – present Lead instructor for Reproducible Research in R: An intermediate workshop on modern approaches and workflows to processing data (PhD and Postdocs), Danish Diabetes Academy in Denmark
2020 – present Lead instructor for Reproducible Research in R: An introductory workshop on modern data analyses and workflows (PhD and Postdocs), Danish Diabetes Academy in Denmark
2018 – present Instructor and founder for Peer-led, participatory live coding R training sessions (Anyone), Aarhus University Community of Researchers Using Open Software in Aarhus, Denmark
2019 Lead instructor for Software Carpentry Workshop (Anyone), Aarhus University in Aarhus, Denmark
2019 Lead instructor for Reproducible Quantitative Analyses and Workflows using R (PhD and Postdocs), German Institute of Human Nutrition Potsdam-Rehbrueke in Potsdam, Germany
2019 Lead instructor for Reproducible Quantitative Methods: Data analysis workflow using R (PhD and Postdocs), Danish Diabetes Academy in Denmark
2018 Instructor for FAIR Data and Software workshop (Anyone), TIB Leibniz Information Centre for Science and Technology and University Library in Hannover, Germany
2017 Teaching assistant for Theoretical Ecology and Reproducible Quantitative Methods in R (EEB430) (Undergraduate), Department of Ecology and Evolutionary Biology, University of Toronto in Toronto, Canada
2017 Teaching assistant for Public Health Nutrition (NFS1201) (Graduate), Department of Nutritional Sciences, University of Toronto in Toronto, Canada
2017 Instructor for Software Carpentry workshops (R) (Anyone), Software Carpentry in Toronto, Canada
2017 Helper for Software Carpentry workshops (Python) (Anyone), Software Carpentry in Toronto, Canada
2017 Helper for Software Carpentry workshops (R) (Anyone), Software Carpentry and UofTCoders in Toronto, Canada
2017 Teaching assistant for Basic Human Nutrition (NFS284) (Undergraduate), Department of Nutritional Sciences, University of Toronto in Toronto, Canada
2016 Instructor for Software Carpentry workshops (R) (Anyone), Software Carpentry in Toronto, Canada
2016 Teaching assistant for Advanced Nutrition (NFS484-1484) (Mixed graduate and undergraduate), Department of Nutritional Sciences, University of Toronto in Toronto, Canada
2016 Helper for CUPE3902 Post-doc Python workshops (Post-docs), CUPE3902 Unit 5 in Toronto, Canada
2016 – 2017 Instructor for Departmental R workshops (Anyone), Code As Manuscript in Toronto, Canada
2016 Instructor for Software Carpentry workshops (Python) (Anyone), Software Carpentry in Toronto, Canada
2016 Helper for Software Carpentry workshops (R) (Anyone), Software Carpentry in Toronto, Canada
2015 Teaching assistant for Public Health Nutrition (NFS1201) (Graduate), Department of Nutritional Sciences, University of Toronto in Toronto, Canada
2015 Instructor for Software Carpentry Workshop (R) (Anyone), Software Carpentry in Toronto, Canada
2015 – 2018 Instructor and one of the co-founders for Peer-led, participatory live coding training sessions (Anyone), UofTCoders, University of Toronto in Toronto, Canada
2015 Teaching helper for Software Carpentry Workshop (R) (Anyone), Software Carpentry in Toronto, Canada
2014 Teaching helper for Software Carpentry Workshop (Python) (Anyone), Software Carpentry in Toronto, Canada
2014 – 2015 Instructor and founder for Code as Manuscript: R and SAS coding workshops (Graduate), Graduate Professional Skills Program, University of Toronto in Toronto, Canada
2014 Teaching assistant for Advanced Nutrition (NFS484-1484) (Graduate), Department of Nutritional Sciences, University of Toronto in Toronto, Canada
2013 Teaching assistant for Advanced Nutrition (NFS484-1484) (Graduate), Department of Nutritional Sciences, University of Toronto in Toronto, Canada
2013 Teaching assistant for Nutritional Microbiology (NFS485) (Undergraduate), Department of Nutritional Sciences, University of Toronto in Toronto, Canada

Supervision

2017 – 2018 Master’s student, Department of Nutritional Sciences, University of Toronto in Toronto, Canada
2014 – 2015 Undergraduate student, Department of Nutritional Sciences, University of Toronto in Toronto, Canada

Curriculum development

  1. ‘rostools/r-cubed: Reproducible Research in R - An introductory workshop on modern data analyses and workflows’. Luke W. Johnston, Helene Bæk Juel, Bettina Lengger, Daniel R. Witte. (2020). URL: https://r-cubed.rostools.org/. DOI: 10.5281/zenodo.3921894.
  2. ‘r-cubed: Reproducible Research in R - An Intermediate Workshop on Modern Approaches and Workflows to Processing Data’. Luke Johnston, Omar Silverman-Retana, Andreas Eiset, Signe Storgaard. (2020). URL: https://r-cubed-intermediate.rostools.org/. DOI: 10.5281/zenodo.4061900.
  3. ‘Reproducible Quantitative Methods: Data analysis workflow using R’. Luke W Johnston, Daniel R Witte, João Santiago, Anna Schritz. (2019). URL: https://dda-rcourse.lwjohnst.com/. DOI: 10.5281/zenodo.2603311.
  4. ‘acdcourse: Analyzing Cohort Datasets with R’. Luke W Johnston. (2019). URL: https://github.com/lwjohnst86/acdcourse. DOI: 10.5281/zenodo.3247819.
  5. ‘UofTCoders/rcourse: Quantitative Methods in R for Biology’. Luke W Johnston, Madeleine Bonsma-Fisher, Joel Ostblom, Ahmed Hasan, James Santangelo, Lindsay Coome, Lina Tran, Elliott Sales De Andrade, Sara Mahallati. (2019). URL: https://uoftcoders.github.io/rcourse/. DOI: 10.5281/zenodo.1117432.
  6. ‘FAIR Data and Software: A Carpentries-based workshop’. Katrin Leinweber, Angelina Kraft, Mateusz Kuzak, Luke Johnston, Martin Hammitzsch, Konrad Förstner. (2018). DOI: 10.5281/zenodo.3707744.

Other Development

2018 FAIR Data and Software (https://tibhannover.github.io/2018-07-09-FAIR-Data-and-Software/), TIB Leibniz Information Centre for Science and Technology and University Library in Hannover, Germany
2017 Theoretical Ecology and Reproducible Quantitative Methods in R (EEB430) (https://uoftcoders.github.io/rcourse/), Department of Ecology and Evolutionary Biology, University of Toronto, Canada in Toronto, Canada
2014 – 2015 Code as Manuscript: Data wrangling, visualization, and reproducibility in R (http://codeasmanuscript.org), Graduate Professional Skills Program, University of Toronto in Toronto, Canada

Committees

2020 – 2021 Scientific program organizing committee for the Danish Diabetes Academy Postdoctoral Winter School, Danish Diabetes Academy in Denmark

Awards

2022 Research Education and Networking Award from Danish Diabetes Academy (DKK 25,000), Denmark
2019 Danish Diabetes Academy Postdoctoral Fellowship from Danish Diabetes Academy (DKK 1.8 million), Denmark
2017 Michael C. Archer Research Excellence Award from University of Toronto , Toronto, Canada
2017 Marie Skłodowska-Curie Master Class and Travel Fund from Aarhus University , Aarhus, Denmark
2017 Working Open Workshop and Travel Scholarship from Mozilla Science Lab (USD 300), Montreal, Canada
2017 Gordon Cressy Student Leadership Award from University of Toronto , Toronto, Canada
2012 Ontario Graduate Scholarship from Government of Ontario (CAD 15000), Toronto, Canada
2013 Trainee Travel Award from Banting and Best Diabetes Centre (CAD 1000), Toronto, Canada
2013 Ontario Graduate Scholarship from Government of Ontario (CAD 15000), Toronto, Canada
2014 Trainee Travel Award from Banting and Best Diabetes Centre (CAD 1000), Toronto, Canada
2014 Conference Travel Grant from University of Toronto (CAD 1120), Toronto, Canada
2014 Alumni Travel Award from Department of Nutritional Sciences, University of Toronto (CAD 200), Toronto, Canada
2014 New Investigator Award from International Society for the Study of Fatty Acids and Lipids , Stockholm, Sweden
2014 Doctoral Student Research Award from Canadian Diabetes Association (CAD 21000), Toronto, Canada
2014 Graduate Novo Nordisk Studentship from Banting and Best Diabetes Centre (CAD 3840), Toronto, Canada
2014 Margaret and Nicholas Fodor Fellowship from University of Toronto (CAD 3000), Toronto, Canada
2014 Ontario Graduate Scholarship from Government of Ontario (CAD 15000), Toronto, Canada
2015 Trainee Travel Award from Banting and Best Diabetes Centre, University of Toronto (CAD 1000), Toronto, Canada

Funding

2022 A framework for an open and scalable infrastructure for health data exemplified by the DD2 initiative (NNF21OC0069462) from NovoNordiskFonden (DKK 14,977,580), Aarhus, Denmark

Employment

2022 – present Team leader, Department of Clinical Medicine, Aarhus University and Steno Diabetes Center Aarhus in Aarhus, Denmark
2019 – 2022 DDA postdoctoral researcher, Steno Diabetes Center Aarhus in Aarhus, Denmark
2018 – 2019 Postdoctoral researcher, Department of Public Health, Aarhus University in Aarhus, Denmark
2017 – 2018 Postdoctoral fellow, Department of Nutritional Sciences, University of Toronto in Toronto, Canada
2011 Research Assistant, Propel Center for Population Health Impact, University of Waterloo in Waterloo, Canada
2010 Research Assistant, Health Psychology Lab, University of Waterloo in Waterloo, Canada
2009 Research Assistant, Child Health Evaluative Sciences, Hospital for Sick Children in Toronto, Canada
2009 Research Assistant, Toronto Rehabilitation Institute in Toronto, Canada
2008 Research Assistant, Health Psychology Lab in Waterloo, Canada
2008 Project Manager, Health Psychology Lab in Waterloo, Canada

Outreach activities

2022 Speaker for The Future is Transparent: Moving Towards Open Science: Podcast discussing how to move researchers more towards incorporating open science practices., Danish Diabetes Academy in Denmark
2022 Website developer for The 1st Gothenburg Precision Nutrition Forum: Using Multi-OMCIs for Data-Driven Systems Epidemiology - Towards Precision Nutrition: Developed the website with the videos of the talks and poster abstracts., Chalmers University of Technology in Denmark