Frozen source and evaluation artifact for the PSB 2027 submission. Built and
refrozen on 2026-07-31 after the approved vascular-effector corrections,
ontology-pattern revision, and expert content review.
Every number in the focused manuscript is regenerated from this artifact by
committed scripts under scripts/.
The public release gate is self-contained. When the separate manuscript
checkout is linked at paper/, --require-paper also makes both LaTeX builds
part of the acceptance contract.
Cite as: PhysioMap v1.1.1.
| quantity | value |
|---|---|
| trait nodes | 1,699 |
| causal influences | 2,270 |
| production relations | 85 |
| constitutive constraints | 4 |
| quantitative expressions | 9 |
| multiplicative modulations | 19 |
| projection traces | 2,387 |
| largest strongly connected component | 213 |
Schema 1.0.0, projection 1.4.0, generator 1.1.0.
The HPO ontology and gene-to-phenotype annotations used by the rare-disease
evaluation are pinned to the 2026-02-16 release under
benchmarks/data/hpo-2026-02-16/. The acceptance contract verifies both
compressed and expanded checksums before evaluation.
| class | count | share |
|---|---|---|
genetic_lof_gof |
900 | 39.6% |
curated_mechanistic |
544 | 24.0% |
pharmacological |
311 | 13.7% |
mechanistic_model |
206 | 9.1% |
perturbation |
156 | 6.9% |
unclassified (legacy-evidence-unclassified) |
153 | 6.7% |
Interventionally grounded (genetic_lof_gof, pharmacological,
perturbation): 1,367 of 2,270 (60.2%). Mechanistic
(curated_mechanistic, mechanistic_model): 750 (33.0%). The frozen
621-item review inventory has 470 human-approved resolutions and 151 open
items.
| file | bytes | sha256 |
|---|---|---|
SHA256SUMS |
1,248 | 7c42bf3ad13217f82399619a776babe1a6827512d704f81309bc2e672e19e426 |
legacy-evidence-baseline.json |
219,966 | 67f7ba9a18e45306b1e5561bdbdf269a926a5c826f804637b5013c5292d0f882 |
legacy-evidence-decisions.yaml |
483,060 | f1e12188404b1e987d15383aeb590a0463bb1489f7ac9556b1a78f3d60548fa1 |
legacy-evidence-worklist.json |
180,895 | e2e175ffeeba8ff28354c0691c06251739d90628244e6c76a2080bb3eaf794d4 |
legacy-evidence-worklist.tsv |
73,753 | 08064f082b21f506ae2cf4ff3eebb85a1a137b5093180f505c590fc501680421 |
migration-report.json |
2,205,604 | b13c9a4d8d0659fca6ec9ba351ba914d82cdccecad8b2c7b3742760d6c615528 |
patterns.yaml |
3,448 | d6c083b2e7feb6333cdf62e1ba255d7746bee5bad609b7c96904fe1fcc0fa6aa |
physiomap-dl.owl |
5,887,065 | 3a899cddd64fd0945020680e508d7f0483a1b6ef9fe232902e90678f3b176922 |
physiomap-el.owl |
12,967,268 | 6ea278f96d46a85bae3619b55a5cd6d7a85cea28fa074ef408ba585b08a17543 |
physiomap-scm.json |
5,923,844 | 9e4ff3dba9c9c5754c38f4cf7c71188c6c628ccdc5fbe10a5514e7fa6d165afa |
physiomap-scm.schema.json |
19,288 | 7d2b96f4a77d0a5509297c858ab8cb4d81dd3c30415f788587175d269e2334ff |
physiomap.owl |
29,859,999 | 7e061dc61c4649a151b25e3ca9375f54959ca6dea1a8fbb10d33fda60d4640c6 |
projection-entailments.tsv |
149,335 | 65fd497171675ef760fc4a5fce71d1997fbfca1e187e89c692ced70b50586091 |
projection-traces.json |
2,977,879 | c56320154eabf7810fe249678d72798686b873d8703cc70d8d043340b5b46e55 |
trait-classification.tsv |
240,920 | 7a205fdce96d79b5a522c6010eaa08ab076d34965b87838cba6c36fdeff0079c |
The immutable v1.1.1 tag and its complete GitHub release are public at
https://github.com/bio-ontology-research-group/physiomap/releases/tag/v1.1.1.
The release includes the canonical OWL and SCM artifacts, checksums, benchmark
data, expert-review archive, manuscript, and supplementary material.
.zenodo.json is prepared for optional Zenodo archiving. A Zenodo DOI has not
yet been minted.