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AI Scientist

User Profiles & Knowledge Base

AI Scientist learns from your research context over time, personalizing its responses and recommendations. It also connects to your organization’s knowledge base for access to shared protocols and institutional knowledge.

User Profiles

Section titled “User Profiles”

AI Scientist continuously learns and remembers your research context across sessions:

  • Preferred host organisms — if you routinely work with E. coli BL21 or S. cerevisiae, AI Scientist defaults to these when suggesting expression strategies
  • Preferred cloning methods — your go-to assembly method (Gibson, Golden Gate, restriction/ligation) is prioritized in design recommendations
  • Lab equipment and reagent constraints — available thermocyclers, competent cell strains, antibiotic stocks, and other practical constraints that affect protocol recommendations
  • Project goals and progress — active research objectives and current project status inform the relevance of suggestions

This context is applied automatically — you don’t need to repeat your preferences in every session. As your research evolves, the profile updates to reflect your current focus.

Knowledge Base

Section titled “Knowledge Base”

The organizational knowledge base provides access to shared institutional resources:

Section titled “Semantic Search”

Search the knowledge base using natural language queries. AI Scientist uses vector-based retrieval to find relevant documents even when your query doesn’t exactly match the document’s wording. For example, searching “how to transform yeast” will find relevant SOPs even if they’re titled “Lithium Acetate Yeast Transformation Protocol.”

SOP Retrieval

Section titled “SOP Retrieval”

Search and retrieve standard operating procedures stored in your organization’s knowledge base. SOPs are returned with their full text, making it easy to follow established protocols directly within your AI Scientist session.

Section titled “Related Entity Discovery”

AI Scientist uses knowledge graphs to discover connections between entities. When you’re working with a specific gene, it can surface related constructs, publications, or protocols from your organization’s knowledge base — connections you might not have found through keyword search alone.