Writing
I write at Donuts with Chopsticks on Substack.
The Year Measles Came Back
Declared eliminated in 2000, measles is now spreading through under-vaccinated counties across 47 jurisdictions. The story zooms from sixty years of data down to the counties, the towns, and the local reporting.
Using Jev for Biomedical Ontology Concept Mapping from Text
Every ontology concept becomes one yes/no question. 643,520 calibrated answers over 20 PubMed abstracts in 11.6 minutes for $2.41 — plus a crosswalk against curated OMIM/HPO records and fill-in candidates for what they lack.
the gap series — benchmarks & evaluation
A Benchmark Score Is an Engine on a Stand
The power unit alone, and the same engine in a package — a wireframe F1 car where every part is a member of the clinical team. Engines don’t win championships; packages do.
One Chart, Five Questions
Healthcare AI benchmarks are saturated, and the evaluation that answers “does this help?” looks like product analytics — in private.
jump to: the race · the unasked question · the chart · the ticket · the wall
State of Healthcare AI Benchmarks
Five things true at once — and the visit clock: put every effort on one timeline and the coverage gap is visible.
standalone: the eras — five eras, each asking a more real question
Model Evaluation as Product Analytics
Capability benchmarks are saturated; the evaluation that answers “does this help?” looks like product analytics, and it happens in private.
tutorials
Data Poetry: Intro to Biomedical Ontologies (Owlready2)
Ontologies as data poetry — reasoning over biomedical knowledge graphs in Python, landing on a rare-disease example.