John Judkins
Ontologist at DeciSym.AI
Philadelphia, Pennsylvania, United States
Summary
👤
Senior🎓
Top SchoolJohn Judkins is an ontologist with 11 years of experience building OBO Foundry- and Common Core-aligned ontologies to make biomedical data interoperable and computable. Currently at DeciSym.AI after five years creating ontology-driven applications at the University of Pennsylvania, he blends domain knowledge in bioinformatics and biomedical engineering with practical application development. His background includes graduate research and teaching roles in medical and engineering settings, giving him a strong foundation in both theory and implementation. He is skilled at translating complex biological concepts into reusable semantic models that support data integration and analysis. Based in Philadelphia, he brings a researcher’s rigor—evident from a 4.0 MS in Bioinformatics—combined with hands-on experience shipping ontology-enabled software. Colleagues value his ability to bridge lab, clinical, and engineering perspectives to produce auditable, standards-aligned knowledge resources.
11 years of coding experience
5 years of employment as a software developer
Chemical Engineering, Biotechnology, Chemical Engineering, Biotechnology at University of OklahomaMaster’s Degree, Biomedical Engineering, Master’s Degree, Biomedical Engineering at University of Arkansas at FayettevilleMaster of Science - MS, Bioinformatics, 4.0, Master of Science - MS, Bioinformatics, 4.0 at University of Arkansas at Little Rock
Github Skills (43)
ontologies10
ontology10
semantic-web10
vector10
geneontology10
interaction10
bioinformatics10
encode10
genomics10
owl10
monarchinitiative10
biomedical10
pathogen10
concert9
ecology9
Programming languages (8)
Github contributions (5)
DIDEO/DIDEO
Mar 2017 - Apr 2018
The Potential Drug-drug Interaction and Potential Drug-drug Interaction Evidence Ontology (DIDEO)
Contributions:296 commits, 62 pushes, 1 branch in 1 year
monarchinitiativeinteractionowldrug-drug-interactiondrug
VEuPathDB-ontology/OWLmaker
Feb 2019 - Jul 2021
Generate an .owl file from tabulated data
Contributions:1 review, 14 pushes, 1 branch in 2 years 5 months
pythonjsonldowlsemantic-web
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