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docs: complete WET_LAB_HANDOFF special notes for all 7 seed families - #91

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cschanhniem merged 1 commit into
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feat/seed-special-notes-complete
Jun 28, 2026
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cschanhniem merged 1 commit into
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feat/seed-special-notes-complete

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Summary

Adds dedicated "Special Notes" sections for the four seed families (SEED-007, SEED-005, SEED-008, SEED-009) that previously had no standalone section in docs/WET_LAB_HANDOFF.md. All 7 pilot panel seed families now have equal documentation depth.

  • SEED-007 (Bombolitin-II) — largest family (26 selected, 4 pilot slots, all NOVEL): origin (Megabombus pennsylvanicus venom, Barra 1994), mechanism, Met oxidation guidance, serum stability (0.636–0.662), VAR_009 as primary bombolitin breakthrough candidate
  • SEED-005 (Cecropin-Magainin Hybrid) — added missing "Expected activity profile" block, corrected serum risk ranking, safety margin note
  • SEED-008 (Puroindoline-a, Trp-rich) — aromatic mechanism standalone section, Trp aggregation dissolution protocol, CD interpretation guidance
  • SEED-009 (Bac2A Proline-rich) — RPMI-1640 requirement restated as standalone, Pro coupling challenges, Pro-bond serine-protease resistance
  • Serum stability table — header updated to "All 7 Seeds"; SEED-006 and SEED-007 rows added; score-sorted

Reviewer HIGH findings fixed: SEED-007 "highest-ranking NOVEL" claim corrected; SEED-009 "highest serum score" corrected. All MEDIUM/LOW findings addressed.

Test plan

  • 1304 tests pass (pre-push hook verified)
  • Code reviewer: 0 CRITICAL, 0 HIGH remaining after fixes

🤖 Generated with Claude Code

…_HANDOFF

All 7 pilot panel seed families now have equal documentation depth.

SEED-007 (bombolitin-II, largest family 26 selected, 4 pilot slots all NOVEL):
- Origin, mechanism, novelty framing, Met oxidation guidance
- Serum stability (0.636–0.662, best raw model score alongside SEED-006)
- Breakthrough candidate framing for VAR_009 (rank 3, ensemble 0.849)

SEED-005 (cecropin-magainin hybrid, 1 pilot slot CLOSE_RELATIVE):
- Dual-domain mechanism, expected activity profile (missing before)
- Safety concern (score 0.845, lowest in panel), serum risk corrected

SEED-008 (puroindoline-a Trp-rich):
- Standalone section summarising non-helical aromatic mechanism
- Trp aggregation dissolution protocol, CD interpretation note

SEED-009 (Bac2A proline-rich):
- Standalone section with RPMI-1640 requirement restated
- Pro coupling challenges, Pro-bond serine-protease resistance

Serum stability table: header → "All 7 Seeds"; added SEED-006 (0.61–0.67)
and SEED-007 (0.636–0.662) rows; sorted by ascending score.
DISCOVERY_PREDICTION.md and ROADMAP.md tracking updated through PR #100.
@cschanhniem
cschanhniem merged commit 5af4942 into main Jun 28, 2026
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@cschanhniem
cschanhniem deleted the feat/seed-special-notes-complete branch June 28, 2026 18:17
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