Quest: Wiki
Layer: Atlas
Priority: P85 (raised from P75 — inline citations now primary focus)
Status: active
Vision
SciDEX wiki pages are the human-readable face of the knowledge graph. The target state: every factual claim is inline-cited with a hoverable popover showing the supporting paper's title, key claim, and a quoted excerpt. Pages are structurally complete (infoboxes, mermaid diagrams, cross-links) and continuously improved by background agents.
FOXP1 and FOXP2 are the current pilot focus: demonstrating best-practice inline citation, paralog cross-referencing, and speech/language disorder representation.
Current Tracks
Track A: Inline Citations (P85 — Primary)
See full spec:
docs/planning/specs/quest_wiki_citations_spec.md- Rich hover popovers with claim + excerpt + figure reference
- FOXP1 and FOXP2 pilot pages fully cited (≥8 inline citations each)
- Recurring citation enrichment task (every 6h)
- Paper-to-wiki backlink governance (every 12h)
- Citation coverage report (daily)
Track B: Structural Quality (P82 — Ongoing)
- Structured infoboxes on all gene/protein/disease pages
- Mermaid pathway diagrams on mechanism pages
- H1 headings present on all pages
- No boilerplate "Background" / "The study of X has evolved..." filler sections
Track C: Cross-links (P78 — Ongoing)
- All pages linked to related hypotheses via artifact_links
- All pages linked to supporting analyses
- Paralog/homolog see-also links (e.g. FOXP1 ↔ FOXP2)
- Disease pages link to gene pages and vice versa
Track D: SciDEX Rebrand (P70)
Replace all "NeuroWiki" references with "SciDEX Wiki":
- quest_wiki_spec.md (this file — done)
- specs: 22c4c017, 48c44e67, a7e9909f, 6391cf49 (mark as legacy)
- api.py: HTML comments, footer text, CSS class names
- wiki_pages.source_repo UI label
Open Tasks
☐ [Atlas] Rich hover popover for wiki citations — claim + excerpt + figure_ref (P88)
☐ [Atlas] FOXP1 page: rewrite with ≥8 inline citations, speech/language featured (P86)
☐ [Atlas] FOXP2 page: rewrite with ≥8 inline citations, all disease associations cited (P85)
☐ [Atlas] Create recurring wiki-citation-enrichment task (every 6h) (P82)
☐ [Atlas] Create paper-to-wiki-backlink governance task (every 12h) (P80)
☐ [Atlas] Add wiki_citations table migration (P75)
☐ [Wiki] Add structured infoboxes to gene/protein wiki pages (P82)
☐ [Wiki] CI: Add mermaid diagrams to next 5 entity pages (P78)
☐ [Atlas] Replace NeuroWiki references with SciDEX in UI-facing code (P70)
Success Criteria
☐ FOXP1 and FOXP2 pages have ≥8 inline citations each, speech/language role prominently featured
☐ Hover popovers show full citation context (claim, excerpt, figure)
☐ Citation coverage ≥80% for pages with linked papers
☐ Recurring enrichment task runs and adds ≥5 citations per 6h pass
☐ Zero "NeuroWiki" in active UI-facing code
☐ All gene/protein pages have structured infoboxes
Work Log
2026-04-09 — Quest Refresh
- Elevated priority to P85 based on user feedback: inline citations are the #1 missing feature
- Added inline citation quest spec (quest_wiki_citations_spec.md)
- Identified FOXP1/FOXP2 as pilot pages — both have refs_json but zero inline markers
- Tooltip currently shows only
authors (year) — upgrading to rich popover with claim/excerpt
- Renamed "NeuroWiki" → "SciDEX Wiki" throughout this spec
- Added 4 governance/recurring task patterns for continuous citation improvement