Open infrastructures · GOVP · Atlas · BiologicalSecure— evidence that stays verifiableGemacode Research · Bilbao
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Reference engine · the engine behind the standard

Atlas Engine

The referenced biological knowledge graph behind every BiologicalSecure assessment. Atlas does not decide whether a product is acceptable — it traces, from a declared composition, which biological pathways are documented in the literature, and attaches an evidence level and a source to every connection.

204
Hormones & signalling molecules
388
Endocrine genes (hormones + receptors)
93,063
Hormone–cell expression mappings
332
Food additives inventoried
810
Cell types across 45 tissues
15,459
Signalling edges
171
Underlying studies & sources
4
Clinical layers: biomarkers · drugs · diseases · variants
01 / method

One chain, end to end.

Every ingredient or compound is followed along the same documented path — from the substance to the physiological system it has been reported to touch.

Input · composition
Substance

Declared ingredients, additives (E-numbers) and compounds.

Mediator
Hormone

Documented signalling molecule the substance is reported to affect.

Mechanism
Gene / Receptor

Synthesis genes and receptors that carry the signal.

Locus
Cell type

Cell populations that produce or receive the hormone.

Context
Tissue · Axis

Tissue location and the physiological axis involved.

Reading the graph honestly: a documented agent→hormone association carries an evidence level; an expression locus only marks where the hormone is produced or received. Atlas also records high-evidence negatives: a documented "no effect" is stored as exactly that.

02 / provenance

Built on referenced science — and we record where it came from.

Atlas integrates established public biological resources with curated, literature-referenced links. Each ingested dataset is recorded with its origin, row count and a content hash.

Base layer
Hormone Cell Atlas (HRdb)

Hormones, endocrine genes, producing and receiving cell definitions, steroidogenesis and metabolism.

Single-cell
Celltypist · Sanger

Cell-type inventories and hormone–cell expression strengths across tissues.

Proteins
UniProt · Guide to PHARMACOLOGY

Protein annotation and receptor / target family classification.

Clinical
ClinVar · GWAS Catalog

Referenced genetic associations underpinning the clinical variant layer.

Curated
Literature-referenced links

Agent–hormone associations, each tagged with study type, population, limitations and a PMID / DOI.

The figures above describe the current, version-tracked knowledge base — a per-table record of source URL, row count and content hash — not a marketing estimate.

How Gemacode works

Built to be checked, not believed

The same commitments stand behind every public system — that is what makes them an infrastructure rather than a set of claims.

Independent verification

Every public record can be checked by a third party, without relying on Gemacode or its servers.

Referenced & evidence-graded

Claims carry sources and evidence levels. Absence of identified evidence is reported as absence — never as approval.

Open, no vendor lock-in

Open protocols and an open verification model, so the ability to verify outlives any single vendor.

03 / used by

Where Atlas is used