Curriculum Vitae
Gavin Duggan
Systems Analyst
geduggan/at/gmail.com
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Education
- Medical Executive Degree
Harvard Medical School, 2016
- Doctorate, Biochemistry
Supervisors: Hans Vogel, Aalim Weljie
University of Calgary, 2013
- Bachelor of Mathematics, Honours Computer Science
University of Waterloo, 2002
- Bachelor of Science, Honours Science
University of Waterloo, 2002
Research publication links (abrv. titles)
Improving reference standards for validation of AI-based radiography , BJR, 2021
Reaching Excellence Through Equity, Diversity, and Inclusion in ISMRM , JMRI, 2021
Chest Radiograph Interpretation with Deep Learning Models , Radiology, 2019
Scalable and accurate deep learning with electronic health records , NJP Digital Medicine, 2018
NMR metabolomics characterization of antibiotic method of action , BMC Microbiology, 2016
Metabolomics of Serum Samples by 1H NMR as a Diagnostic Approach for Septic Shock, Critical care medicine, 2014
Effect of Aluminium and Copper on biofilm development of Pseudomonas in different media. Metallomics, Apr 2013
Differentiating short and long-term effects of diet manipulation in mice, Diabetes Obes Metab., Sep 2011
Metabolomic response to exercise training in lean and diet-induced obese mice, J Appl Physiol, May 2011
Metabolic profiling of vitamin C deficiency in mice, J biomol NMR, Apr 2011
Metabolomic profiling of serum and urine in ulcerative colitis of mice, J Proteome Res, Dec 2010
Metabolomic profiling of dietary-induced insulin resistance in the fat-fed mouse, Diabetes, Obesity and Metabolism, 2007
HMDB: The Human Metabolite Database, Nucleic Acids Research, Jan 2007
Resources for display and analysis of DNA structural variants, Cytogenetic Genome Research, 2006
Human Chromosome 7: DNA sequence and biology, Science, May 2003
Guest Speaker, Parallel Computation as a Tool for in silico biology. UofT Bioinformatics Developers Network, 2004
Guest Speaker, Grid Computing and Sytems Biology. Business of Science Symposium, 2003
Life science skills and knowledge
- Etiological, system-oriented biology. Pathway disruption analysis and modeling.
- Metabolomics: Mass spectrometric and NMR based analysis of biofluids
- Genomic sequence analysis using online, local, and hybrid (Taverna, BioMoby) tools
- Protein structure/folding, molecular dynamics. Transcription and expression analysis
- Multisource, cross-field data integration
- Human molecular genetics, animal and plant biotechnology, virology, microbiology
- Thermodynamics, polymer chemistry, fundamental quantum chemistry
- Sample preparation, culturing and associated biotechnology procedures and implications
Informatics skills and knowledge
- Statistical, algebraic, or numeric modeling of multivariate and megavariate datasets.
- Simulation and analysis in R, Matlab, SIMCA
- Data visualization using standard or bespoke presentations
- Large dataset computation on strong or weakly coupled parallel architechtures
- Optimization of map/reduce and graph-based parallel analysis
- System performance evaluation, queueing and pipeline simulation theory.
- Software design in Java, C, C++, R, Perl, Python and PHP
- RDBMS development using integrated SQL and GUI methodologies
- Heuristic search development (NP complexity, LISP, Scheme)
- Multithreaded hardware control programming
- Cross-platform client/server development using high or low level libraries
- Hardware level graphics software design and development
Professional skills and knowledge
- Written and verbal communication expertise. Clear reporting, summary, and presentation
- Team management and participation with 3-40 team members. Direct and tiered reports
- Agile development using Scrum methodology for software or scientific projects
- Cloud based collaboration, scheduling, and project management
Professional Experience
| Google | Software Engineer - Analytics | 2013- |
| University of Calgary | Postdoctoral Fellow | 2013 |
| University of Calgary | HMDB, Doctoral Student | 2006-2013 |
| TCAG: Sick Kids Toronto | Genomic analysis, Software development | 2002-2005 |
| Hughson Lab, UWaterloo | Co-op: CSA Physiological signal modeling | 2001 |
| Geotouch.com, Palo Alto | Co-op: Mobile device development | 2000 |
| VMI Medical Software, Inc | Co-op: MRI software QA | 1999 |
| Alias|Wavefront, SGI | Co-op: Studiopaint/Maya UI | 1998 |
| Blake, Cassels & Graydon, LLP | Co-op: Systems administration | 1997 |
| Ferranti-Packard, Rolls Royce | Co-op: Numerical software conversion | 1996 |
Personal and professional references available upon request
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