Product 05 · Zentari Cell

A digital cell must change with its lifecycle.

Population fate and culture environment evolve through deterministic reference engines while stage-specific protein-programme identity remains explicit and reviewable.

Cell-F1 seven-day simulated population fate with absolute-unit oxygen, glucose, lactate and pH traces — FIG 08 **Cell-F1 deterministic axial reference**`celltrace-7d87ae1e… · 174 snapshots · 0–168 h` Reduced-order, literature-order structural priors; no biological or laboratory validation.
Open evidence →

Engineering stateDeterministic validation spine and retained trace

Scientific evidenceCell-F1 reduced-order L0 prior

Next gateMeasured protein catalogue, calibration and laboratory validation

A cell is not one static parameter set.

Workflow

From declared biology to a challengeable trace.

The validation spine keeps geometry, engine fidelity, lifecycle context and evidence authority explicit.

01Declare
Cell line, lifecycle stage, culture and geometry context.
02Bind
Protein-programme identity and permitted directed transition.
03Run
Cell-F0 or axial tanks-in-series Cell-F1 reference engine.
04Trace
Population fate, oxygen, glucose, lactate and pH.
05Verify
Invariants, digests, attempts and numerical checks.
06Challenge
Independent solver, imaging and laboratory evidence.

Actual result + contract capability

One retained trace. One honest lifecycle boundary.

Figure 08 is generated by Cell-F1. Figure 09 is a conceptual view of a context-only contract, not a second simulation result.

Conceptual sequence of lifecycle-specific protein-programme identities and directed transitions — FIG 09 **Lifecycle programme identity · context only**`main · 50b21e3 · LifecycleProgramme contract` The sidecar does not alter F0/F1 kinetics and does not validate a real-cell protein catalogue.
Open evidence →

Trace duration: 168 h
Snapshots: 174
Final viability: 0.820
Final oxygen: 0.549
Final glucose: 24.944
Lifecycle kinetics: Unchanged

Different stages require different protein programmes.

Methods

A validation spine before a biological claim.

Reference engines, spatial evidence candidates and future solver handoffs are deliberately separated.

Cell-F1

Deterministic axial tanks-in-series population and environment reference.

Not a conservative 3D finite-volume solver.

Lifecycle context

Stage-specific protein-programme identity and directed transition contracts.

No effect on F0/F1 kinetics today.

OpenUSD

Narrow, core-only qualification for declared local static triangle surfaces.

Not arbitrary CAD or production geometry authority.

Spatial handoff

Contracts bind OpenFOAM and FEniCSx case bytes, builds, numerics and cross-code comparison.

They do not prove either production solver actually ran.

Surrogate governance

Dual-holdout recommendations, safety policy and four-trigger fallback eligibility.

No runtime-authoritative surrogate is admitted.