Ontology-Based Physiological Simulation Engine — Research Preview
Experimental research software · Synthetic data only · Not for clinical use · Not scientifically validated. Do not use for diagnosis, treatment decisions, or patient-specific predictions. No patient data was used. Default parameter values are for exploration and are not calibrated to the literature.
Ontology graph
Explore source claims, model references, and the v2 catalog. Select nodes or relations to see source records and provenance.
Experiment agent lab (AI plans, the real engine runs, every number is checked)
Replay recorded sessions in which a language model turned a plain-language hypothesis into ontology-grounded engine experiments; re-run every experiment in your browser and re-verify each claim. Medical-advice requests are refused. Synthetic, not clinically validated.
Run the simulation in your browser
The unmodified physiosim engine runs locally in your browser via Pyodide (agreement with the native engine about 1e-10 relative). Adjust parameters and watch the animated circulation. Synthetic data; not clinically validated.
Demo: Phase 1 six-compartment circulation model
Synthetic simulation results and CSV/manifest for baseline, reduced contractility, and partial recovery scenarios.
Demo: Four-chamber M1 snapshot
Four-chamber M1 results run with synthetic fixed parameters, figures, trajectory CSV, and manifest.
Demo: LA–mitral valve–LV applied sidecar
Anatomy metadata sidecar and gate report. External numerical connection is CLOSED.
Methodology
Model equations, ontology hierarchy, verification methods, AI-assisted development and cross-review process, limitations, and sources.
References
All papers, specifications, and model records cited or used as evidence, with DOI/PMID links and actual access scope.
Repository documents
Project documents rendered verbatim (sensitive information redacted).
Build: 2026-11-02 03:45 UTC · Source commit f61234737d6f1fdb3c67448660bf715681d2bb2e · SHA-256 for all files: provenance.json
Review status: the graph viewer (PR #6) and four-chamber M1/applied sidecar (PR #5) are unmerged drafts. Ontology decisions and physiological validity are unapproved. See the methodology page for details.
Sources and licensing: the graph viewer and LA–mitral valve–LV applied demo contain derived data from [private repository] (commit 70784bcdb9c14fba5271ee73f3c62b5f94ccbcfb). That repository has no open-source license for its own code or data, and its owner authorized public viewing on this site on 2026-11-02 (no permission to reuse or redistribute). Terminology sources: Uberon (CC BY 3.0), FMA (CC BY 4.0), and OBO Relations Ontology (CC0). The Smith et al. 2004 CellML model is CC BY 3.0. Other references retain their original copyright terms. Full details: NOTICE.txt. Versions, licenses, and GitHub links for open-source software used (OpenCOR, pySHACL, RDFLib, SciPy, NumPy, etc.) are listed in the methodology page open-source inventory.
Sensitive information handling: account and billing details, AI usage, internal request IDs, server and local paths and host names, device OS version, and private repository names are redacted from the site. Redacted files and original hashes are listed in provenance.json under modified_files.