Metadata
| Status | done |
|---|---|
| Assigned | agent-63 |
| Agent identity | 3184716484e6f0ea08bb13539daf07686ee79d440505f1fdf2de0357707034c3 |
| Created | 2026-05-02T02:10:00.773453123+00:00 |
| Started | 2026-05-02T02:10:21.260513779+00:00 |
| Completed | 2026-05-02T02:13:05.831799553+00:00 |
| Tags | landing, science, phr, factcheck, eval-scheduled |
| Eval score | 0.78 |
| └ blocking impact | 0.86 |
| └ completeness | 0.82 |
| └ constraint fidelity | 0.55 |
| └ coordination overhead | 0.66 |
| └ correctness | 0.80 |
| └ downstream usability | 0.81 |
| └ efficiency | 0.72 |
| └ intent fidelity | 0.68 |
| └ style adherence | 0.86 |
Description
Read-only fact-check task. Inspect https://ulivo.poietic.life/wg/feeds/phrs-cnv-study/ and public/local context if needed. Verify safe wording around pseudohomologous regions and copy-number-aware gene enrichment analysis. Do not frame this mainly as generic CNV or subtelomere discovery unless the trace supports it. Deliver short do/don't guidance and one compact evidence-bound card sentence. Do not edit files.
Depends on
Required by
Log
- 2026-05-02T02:10:21.204111304+00:00 Lightweight assignment: agent=Default Evaluator (31847164), exec_mode=light, context_scope=task, reason=Default Evaluator best matches a correctness-critical read-only fact-check, with strong prior performance and an evaluator role suited to evidence-bound verification.
- 2026-05-02T02:10:21.260518619+00:00 Spawned by coordinator --executor codex --model gpt-5.5
- 2026-05-02T02:10:38.002166012+00:00 Starting read-only fact-check: inspecting feed page and source context for PHR/subtelomere/CNV wording.
- 2026-05-02T02:12:05.461636662+00:00 Fact-check deliverable: DO: - Say human subtelomeres are repeat-rich, segmental-duplication-rich, recombination-active, and frequently copy-number-variable regions. - Say PHRs are established in the human acrocentric short arms (chr13/14/15/21/22) by Guarracino et al., Nature 617:335-343 (2023), with recombination signatures between heterologous acrocentric chromosomes. - Use cautious language for subtelomeres: candidate PHR-like/pseudohomologous relationships, subtelomeric homology/duplication blocks, or regions where pangenome methods can test for PHR-like exchange. - For CNV methodology, emphasize paralog-aware/pangenome-aware copy-number inference and validation, not ordinary linear short-read calling as sufficient. DON'T: - Do not state or imply that all human subtelomeres are PHRs, or that the Nature 2023 PHR result was a subtelomere result; its primary locus is acrocentric short arms. - Do not conflate pseudo-homologous regions (PHRs) with pseudoautosomal regions (PARs); PARs are an analogy/control case for X/Y recombination, not the same term. - Do not claim copy-number/CNV methods by themselves prove recombination or clinical pathogenicity; they support candidate discovery/genotyping that needs orthogonal evidence. Evidence-bound card sentence: Pangenome methods can test repeat-rich subtelomeric and acrocentric regions where segmental duplications, CNV, and heterologous recombination complicate linear-reference analysis, with established PHR evidence strongest for human acrocentric short arms and subtelomeric wording kept to candidate PHR-like homology until validated. Evidence checked: public feed https://ulivo.poietic.life/wg/feeds/phrs-cnv-study/; local notes v3-discovery-d2-phr-research-arc and v3-discovery-d3-cnv-methods; Guarracino et al. Nature 2023 doi:10.1038/s41586-023-05976-y; Linardopoulou et al. Nature 2005 doi:10.1038/nature04029; ctyper Nature Genetics 2025 doi:10.1038/s41588-025-02346-4; Liao et al. Nature Communications 2024 doi:10.1038/s41467-024-44980-2. Validation: no files edited by this task.
- 2026-05-02T02:12:47.869059268+00:00 Corrected fact-check deliverable after user correction: DO: - Frame the feed as copy-number-aware gene enrichment analysis around PHR-linked or PHR-adjacent candidate regions, coordinated through mapping, weighted/hypergeometric methodology, validation, benchmarking, and synthesis. - Say PHR biology is anchored by Guarracino et al., Nature 617:335-343 (2023): pseudo-homologous regions were identified in human acrocentric short arms using pangenome/all-to-all graph-aware analysis. - Say copy-number awareness matters because duplicated/paralogous loci can distort ordinary gene-set enrichment if genes/intervals are treated as single-copy, independent observations. - Use subtelomeric wording only as supporting context where the trace names subtelomeric OR/gene-family work; phrase it as complex repeat-rich/paralogous regions, not as the headline. DON'T: - Do not summarize the feed as generic CNV discovery or subtelomere discovery; the visible trace centers enrichment methodology and synthesis. - Do not claim the workflow discovered/validated new PHRs, CNVs, disease associations, or clinical results. - Do not imply weighted hypergeometric/enrichment results prove recombination; they are prioritization/statistical-analysis outputs that require biological validation. - Do not conflate PHRs with PARs, and do not overextend acrocentric PHR evidence to all subtelomeres. Evidence-bound card sentence: WorkGraph coordinated a copy-number-aware gene-enrichment trace around PHR-linked genomics, carrying candidate mapping through weighted hypergeometric methods, validation, and synthesis while keeping PHR and subtelomere claims bounded to the supporting evidence. Evidence basis: feed task names include research-copy-number, map-copy-number, investigate-weighted-hypergeometric, synthesize-copy-number, synthesize-parameter-mapping, synthesize-r-phyper, validation/performance/statistical-validation tasks, plus PHR/gene-family supporting tasks; local note notes/evaluate-phr-cnv-landing-card-framing.md independently identifies the same center of gravity. Public literature checked for boundaries: Guarracino et al. 2023 Nature PHR/acocentric result; Linardopoulou et al. 2005 Nature subtelomere recombination/segmental-duplication context; ctyper Nature Genetics 2025 for paralog-aware copy-number methods. Validation: corrected guidance now follows updated task description and urgent message; no files edited.
- 2026-05-02T02:12:58.229834675+00:00 Validated: task-specific criteria met after correction; delivered do/don't guidance and compact evidence-bound card sentence in logs; inspected feed/local context/public literature; read-only constraint respected with no files edited.
- 2026-05-02T02:13:05.831807037+00:00 Task pending eval (agent reported done; awaiting `.evaluate-*` to score)
- 2026-05-02T02:13:50.762147469+00:00 PendingEval → Done (evaluator passed; downstream unblocks)