How to Read This Handbook

This handbook is organized by research object: data, molecules, therapeutics, cells, laboratories, and practice. Each chapter uses the same three-tier structure so a reader can locate the evidence level before acting on a claim.

Fast Path

• For model selection, start with Evaluation Principles and Benchmarks.
• For molecular design, read Protein Structure Prediction, Protein Design, and Antibody and Biologic Design.
• For therapeutics work, read Target Identification, Small Molecule Generation and ADMET, and Translational Evidence.
• For cell modeling, read Single-Cell Foundation Models and Perturbation Prediction.
• For automation, read Self-Driving Laboratories and Agentic Science Workflows.

Evidence Tiers

• Demonstrated means the claim is supported by published evidence, official documentation, or reproducible benchmark results.
• Theoretical means the claim is plausible but not established for routine practice.
• Beyond current capabilities means the claim is not supported by current evidence.

How to Use Citations

Citations are inline links. Peer-reviewed sources use author-year labels. Official program and database sources use organization-year labels. Preprints are labeled when used.