David Nickerson

University of Auckland — New Zealand

Biochemistry, Genetics and Molecular Biology · Life Sciences

28h-index3.5kcitations300works1.42yr avg
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Research Topics

Gene Regulatory Network Analysis(105), Cell Image Analysis Techniques(56), Scientific Computing and Data Management(55), Bioinformatics and Genomic Networks(40), Microbial Metabolic Engineering and Bioproduction(26)

Publications296 total

Verification and reproducible curation of the BioModels repository
PLoS Computational Biology·2025Open Access
A thermodynamically consistent approach to modelling epithelial solute and water transport in the proximal convoluted tubule
2025Open Access
Energy-based bond graph models of glucose transport with SLC transporters
Physiome·2025Open Access
Autonomic Neuroscience: Basic to Clinical (AN:BC): A new relationship with the SPARC portal
Autonomic Neuroscience·2025
Interactive maps of nerve-organ anatomy and function on the SPARC Portal
Physiology·2025
Visualizing anatomical variability of the vagus nerve
Physiology·2025
FAIRification of computational models in biology
2025· 1 citedOpen Access
From FAIR to CURE: Guidelines for Computational Models of Biological Systems.
PubMed·2025· 3 citedOpen Access
Verification and reproducible curation of the BioModels repository
2025Open Access
Energy-based bond graph models of glucose transport with SLC transporters
Biophysical Journal·2024· 3 citedOpen Access
The Physiome Project and Digital Twins
IEEE Reviews in Biomedical Engineering·2024· 3 cited
Organism-wide physiological systems
2024Open Access
A standards-based software tool to support prognostic modelling: application to exemplar heart failure risk scores
European Heart Journal·2024Open Access
A review of the diverse applications of bond graphs in biology and physiology
Proceedings of the Royal Society A Mathematical Physical and Engineering Sciences·2024· 5 citedOpen Access
Energy-based bond graph models of glucose transport with SLC transporters
2024Open Access
A Standards-Based Software Tool to Evaluate the Added Prognostic Value of Biomarkers: A Demonstration With NT-proBNP and Cardiac Troponin-T for Heart Failure Prognosis Within a New Zealand Cohort
Heart Lung and Circulation·2024Open Access
Mapping the Vagus Nerve with Anatomical Scaffolds
Physiology·2024
Specifications of standards in systems and synthetic biology: status, developments, and tools in 2024
Berichte aus der medizinischen Informatik und Bioinformatik/Journal of integrative bioinformatics·2024· 8 citedOpen Access
The simulation experiment description markup language (SED-ML): language specification for level 1 version 5
Berichte aus der medizinischen Informatik und Bioinformatik/Journal of integrative bioinformatics·2024· 4 citedOpen Access
Cardiac Cellular Electrophysiological Modeling
2024
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Frequent Co-authors

Peter Hunter(23), Dagmar Waltemath(14), Michael Hucka(11), Martin Golebiewski(10), Alan Garny(10), Nicolas Le Novère(9), Poul M. F. Nielsen(9), Chris J. Myers(8), Falk Schreiber(8), Frank Bergmann(7), Jonathan Cooper(7), Herbert M. Sauro(7), Michael T. Cooling(7), Randall D. Britten(6), Poul Nielsen(5), Andrew K. Miller(5), Martyn P. Nash(5), Nicolas P. Smith(5), Matt Halstead(5), Matthias König(5)