bioMind is the in-product AI layer across Pan.bio. One unified system, not multiple separate bots. Live today in Notebooks, Workflows, and VAIC. Cohort agents are in development. There is no public MCP server or REST API.
How bioMind Works
Specialized Agents,
Shared Intelligence.
Under the hood, bioMind is powered by the BioAgents layer, a set of domain-specialist agents, one per application, that share a common library of reusable skills and tools. Each agent has its own curated knowledge and allowed tools, but the user never sees this routing. They just talk to bioMind.
Workflow Agent
Guides users through workflow parameter configuration, assists with job submission, and answers questions about workflow descriptions and usage guidelines.
Notebook Agent
Assists researchers in Python/R notebooks with code generation, output explanation, and issue flagging.
Cohort Discovery Agent
Planned: translate natural-language queries into structured filters and surface matching cohorts with transparent gap disclosure.
Cohort Research Agent
Planned: help researchers determine which cohort best fits their research question, with comparative recommendations.
VAIC Agent
Guides clinicians through non-automatable evidence criteria, suggests applicable scores with rationale, and provides links to relevant calculators and guideline resources.
VAIC Research Agent
Searches variants against published literature and clinical databases, returning structured summaries of relevant findings.
Differentiators
What No Other Platform
Offers.
One AI, Every Application
No other bioinformatics platform has a unified AI copilot across notebooks, workflows, and variant interpretation. Cohort agents are in development. bioMind is one system with a shared chat UX, memory layer, and tool registry across all applications.
Guideline-Aware Classification
The VAIC Agent codifies CanVIG, ACGS, ClinGen, and gene-specific guidelines into structured, reproducible classification logic.
Natural-Language Cohort Discovery
In development: describe what you need in plain language. The Cohort Discovery Agent is being built to translate that into structured filters and surface matching cohorts with transparent gap disclosure.
Privacy-First by Design
Tenant isolation, aggregate-only patient data access, in-country deployment (GCC/US), and data residency enforcement built into the architecture.
Modular & Composable
New applications, agents, and skills can be added via configuration without changing core infrastructure. Capabilities built for one vertical become available across the platform.
Privacy & Security
Privacy-First
by Design.
The agent layer is designed for healthcare and genomics data from the ground up, not retrofitted. Every safeguard is structural, not a policy checkbox.
De-Identified Data Only
All patient data is de-identified before it reaches bioMind. For Cohorts, the agent operates exclusively on metadata.
Tenant Isolation
Every organization's data is isolated with row-level security. One customer's data, conversations, and AI interactions are never visible to another.
In-Country Processing
Designed for in-country deployment (GCC, US) with data residency enforcement. All LLM calls route through in-region infrastructure.
Full Audit Trail
Every AI action, tool calls, LLM invocations, data access, is logged with user ID, tenant ID, timestamp, and input/output hash.
Role-Based Access Control
Write operations require explicit user confirmation and elevated permissions. The AI cannot modify clinical data without human approval.
Planned architecture
Built for Integration
& Extensibility.
MCP and A2A are planned architecture. There is no public MCP server or A2A endpoint today. These cards describe the intended design, not a live public interface.
MCP Server
Planned
bioMind is designed to integrate with external systems through the Model Context Protocol (MCP), so agents can access external tools, data sources, and platform capabilities through standardized MCP servers. This is not a public MCP endpoint today.
Agent-to-Agent Protocol
Planned
The A2A protocol is planned so BioAgents can communicate with each other and with third-party agents. There is no public A2A endpoint today.
Composable Skills
New skills, tools, and domain knowledge can be added via configuration. Capabilities built for one application become available across the platform without code changes.
Transparency
What's Live Today
& What's Next.
We believe in shipping transparently. Here's an honest look at where bioMind stands, what's already in your hands, what we're actively building, and what we've intentionally scoped out.
Shipped
- Notebook Agent: Code generation, debugging, visualization, and conversational memory inside notebooks.
- Workflow Agent: Guides workflow parameter configuration, answers questions from workflow documentation, and helps diagnose failures.
- VAIC Agent: Guides clinicians through non-automatable evidence criteria and suggests applicable scores with rationale. Final classification stays with the clinical user.
- VAIC Research Agent: Searches variants against published literature and clinical databases, returning structured summaries of relevant findings.
- Privacy-by-design architecture with in-country deployment and multi-app extensibility
In development
- Cohort Discovery Agent: Planned: translate natural-language queries into structured filters and surface matching cohorts with gap disclosure.
- Cohort Research Agent: Planned: comparative recommendations for which cohort best fits a research question.
- Direct file system access for bioMind (planned via MCP server integration)
- External database queries (ClinVar, gnomAD on roadmap)
By design
- AI assists evidence evaluation; final classification stays with clinicians.
- bioMind generates code and guidance; it does not autonomously execute multi-step workflows.
- MCP and A2A are planned architecture. There is no public MCP server or A2A endpoint today.
Enforced at the infrastructure level, your data stays in your jurisdiction, always.
Meet bioMind
One AI copilot that adapts to your context. Live today in Notebooks, Workflows, and VAIC. Cohort agents are in development.
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