1. Overview
  3. Context — Why This Field Exists
  4. The Biology, From Zero
  5. The Field — What Toxicogenomics Is For
  6. The Research Landscape
  8. The Program — Four Papers
  9. ToxCompl & Matrix Factorization From Zero
  10. TransPlatformer — Across Machines
  11. GenTox — Inductive Matrix Factorization
  12. TransTissueFormer — Across Organs
  13. The Augmentation
  14. Walkthrough — One Matrix, Four Axes
  16. The ML Field
  17. State of the Art — July 2026
  18. Single-Cell Foundation Models, With Toy Data
  19. What Machine Translation Offers
  21. Synthesis & Program
  22. Connecting the Dots — All Four Papers
  23. Research Agenda — Defensible vs Speculative
  24. The Frontier — Eight Directions
  26. Reference
  27. Math Notes — Every Derivation
  28. Sources & Confidence
  30. Extended Study
  31. The Foundation Model Landscape for Biology
  32. Reading the July 2026 Paper Stack
  33. A Reasoning-Dataset Idea — Critique & Plan
  34. Composable Weight Space? Task Arithmetic on scFMs
  35. Code — Runnable Demos
  37. Model Readings — Author-Level
  38. Reading scGPT
  39. Reading Tahoe
  40. Reading BulkFormer
  41. Reading EVA (transcriptomic focus)
  42. Comparison & Research Directions