The Ground
MapForge
Builds a production knowledge graph from any biological data — ingests sources, links entities, scores confidence on every connection, serves it through an API.
Learn more →General models invent biology. We build the layer they check against.
Graphomics is the verified data plane for biological AI — a curated knowledge graph, validated pipelines, and a provenance ledger, callable over MCP from the tools your team already uses. Runs managed, self-hosted, or licensed — your data never has to leave your perimeter.
MapForgeWorkbenchNexus
The Problem
What scientists were promised — and what they actually get.
Promised
— Gene–disease links, proposed on demand
— Mechanistic hypotheses built from omics data
— Investigation cycles run end to end
— Publication-ready reports drafted in minutes
Reality
— Species, diseases, and pathways get hallucinated
— No source of truth linking gene → disease → target
— 50+ bioinformatics tools that don't connect
— No data isolation between one lab and the next
The reasoning is already a commodity. What's missing isn't intelligence — it's a trustworthy substrate to reason over.
The Insight
AI got good at code because code can be checked.
An agent writing software has somewhere to stand: it can run the code, read the trace, watch the test fail, and correct itself. Biology gives an agent none of that. There is no executable, inspectable record to ground against — so it guesses. Build that record, and the agent becomes trustworthy.
01
Executable
An answer becomes an operation that can be run and re-run, not a paragraph of text.
02
Inspectable
Every intermediate step is exposed as structured, queryable evidence you and the agent can audit.
03
Stateful
Progress persists across steps — a memory of what was decided that survives the loop.
The Loop
Ground. Execute. Contribute.
Ask a grounded question, reason over the graph, run a validated pipeline — then write the result back with its provenance. That return step is what closes the loop.
The Hands
Workbench
50+ validated bioinformatics pipeline steps that actually run the analysis. Multi-tenant, RBAC, per-org storage, MCP-native.
Learn more →The Mind
Nexus
A research agent that reasons over the graph and orchestrates the pipelines, in natural language.
Learn more →↻ Every answer writes back to the graph — with its provenance.
MCP
Built on open standards. Any agentic tool — Claude Code, Cursor, your own — plugs in over MCP. Nexus is included, not required.
Deployment
Runs where your data already lives.
Managed, self-hosted inside your own environment, or licensed outright. Your proprietary data never leaves your perimeter.
Managed
We run it. You query it. Nothing to maintain.
Self-hosted
Deployed inside your own environment, under your controls.
Licensed
License the engine outright and run it anywhere.
Proof
MicroMap isn't the product. It's proof the engine works.
MapForge built MicroMap — a microbiome knowledge graph — from raw sources in days, no manual curation pipeline.
63,316
microbe–disease associations, spanning 2,981 microbes and 243 diseases
1.7M+
entities
1.1M+
taxa
1,400+
diseases
6,500+
metabolites
6,200+
drugs
2,028
proteins
60+
API endpoints
50+
analysis nodes
Who It's For
Three ways in.
Platform team
Point MapForge at your own data and license the engine that builds the graph.
Explore MapForge →Lab or core facility
Run validated pipelines with real isolation between projects and teams.
Explore Workbench →Bench scientist
Ask a grounded question in plain English, get a cited answer. No coding required.
Explore Nexus →Why Now
Three things changed.
01 · Capability
Reasoning got good, and cheap. Frontier models can plan an experiment and read an analysis. Intelligence is no longer the bottleneck.
02 · Standards
MCP turned every pipeline and data source into something an agent can call. The plumbing is finally open.
03 · Stakes
A hallucinated pathway still costs months at the bench. Grounding isn't a nicety here — it's the whole job.
The reasoning arrived this year. The ground to reason over didn't.
Every lab. Every organism.
Every answer, grounded.