Silk-Ovarioids: establishment and characterization of a human ovarian primary cell 3D-model system.

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signals.\",\"target_result\":\"Silk-Ovarioids were maintained as free-floating cultures for up to 42 days without signs of cell death.\",\"number_stated\":true}", "reading": {"parent_value": 42, "unit": "days", "evidence": "Silk-Ovarioids were maintained for up to 42 days as free-floating culture without any signs of cell death, as confirmed by the absence of TUNEL, γ-H2A.X, and cleaved caspase 3 fluorescent signals.", "target_result": "Silk-Ovarioids were maintained as free-floating cultures for up to 42 days without signs of cell death.", "number_stated": true, "source_locator": "chars 2478-2674 of source sha256 2ef0962fbd526763fb499a8a862bc993c2abec247f7efd5434df59811bdda294"}, "recorded_at": "2026-10-31T15:31:12.467977+00:00"}, {"provider": "minimax_alt", "model": "MiniMax-M3", "prompt_version": "replication-target-v2", "prompt_hash": "88b7d2cac5f3aa85f8a5b7db11962f9b5650dab491a3b47f3cc0e54d8ff3102c", "source_hash": "2ef0962fbd526763fb499a8a862bc993c2abec247f7efd5434df59811bdda294", "raw_response": "<think>We need produce JSON only. Need decide headline numerical result paper states for main finding registered target main finding. Need exact quote contiguous with number whole clause attribution. Candidates: Silk-Ovarioids maintained up to 42 days free-floating no cell death. n=120 counts. Main headline numerical result likely 42 days. Need carefully interpret user asks single numerical result replication registered target reproduce. Registered target headline numerical result paper states for main finding. Text includes n=120 Silk-Ovarioids, up to 42 days, vessel-like structures after 4–6 weeks, five patients age etc. Headline main result = established 3D models long-term culture 42 days. Need choose 42 days and quote sentence \"Silk-Ovarioids were maintained for up to 42 days as free-floating culture without any signs of cell death, as confirmed by the absence of TUNEL, γ-H2A.X, and cleaved caspase 3 fluorescent signals.\" Unit \"days\". parent_value 42. evidence exact sentence includes number. target_result concise describe. number_stated true.\n\nNeed ensure \"headline number only\" means no extra numbers in target_result; could say \"Silk-Ovarioids were maintained for up to 42 days as free-floating culture without any signs of cell death.\" They ask headline number only: value paper itself states. Evidence exact contiguous quote containing number and whole clause attribution. Could quote just clause \"Silk-Ovarioids were maintained for up to 42 days as free-floating culture without any signs of cell death\" (exact contiguous but maybe not full sentence). They say when text links attribution quote whole clause so reader check. First part is clause and attaches target. Could quote full sentence as evidence includes number and no other numeric. Fine. target_result perhaps \"The paper states that Silk-Ovarioids were maintained for up to 42 days as free-floating culture without any signs of cell death.\" Contains number but okay? \"Report the headline number only\" likely JSON number and unit, with target_result string summary. Could use target_result \"Silk-Ovarioids were maintained for up to 42 days without signs of cell death.\" However they want headline number only maybe target_result can be descriptive but no extraneous numbers. Could be \"Long-term maintenance of Silk-Ovarioids without signs of cell death.\" Best target_result perhaps \"Silk-Ovarioids were maintained as free-floating culture without signs of cell death.\" no duplicate numeric.\n\nNeed consider 42 vs n 120. Paper abstract main finding likely \"successfully established ovarian cortex- and medulla-derived 3D systems using Biosilk, termed Silk-Ovarioids (n = 120). Silk-Ovarioids were maintained for up to 42 days...\" \"headline numerical result paper states for its main finding\" most likely 42 days. n=120 sample count isn't outcome. The prompt parent_value might refer to unit conversion original tasks, but here we stick.\n\nNeed provide exact JSON valid with unicode gamma and alpha etc okay. Use entire sentence:\n\"Silk-Ovarioids were maintained for up to 42 days as free-floating culture without any signs of cell death, as confirmed by the absence of TUNEL, γ-H2A.X, and cleaved caspase 3 fluorescent signals.\"\nunit days.\nparent 42.\nnumber_stated true.\ntarget_result maybe \"Silk-Ovarioids were maintained for up to 42 days without signs of cell death.\" But headline number only implies target_result should identify result. We can state \"Long-term maintenance of Silk-Ovarioids in free-floating culture without signs of cell death\" no number? Schema target_result string. Usually expectations one result text with headline. Could be \"Silk-Ovarioids were maintained for up to 42 days without signs of cell death.\" This is clean but repeats number in string. They didn't forbid. Evidence must contain exact quote. I think use \"Silk-Ovarioids were maintained for up to 42 days as free-floating culture without any signs of cell death.\" That's paraphrase? Exact substring except no as confirmed. But target_result isn't evidence, can be. Perhaps target_result \"Long-term stable maintenance of Silk-Ovarioids without cell death.\" It avoids adding numbers elsewhere. We need no invention. Fine.\n\nNeed ensure not output reasoning. JSON.</think>\n\n{\"parent_value\":42,\"unit\":\"days\",\"evidence\":\"Silk-Ovarioids were maintained for up to 42 days as free-floating culture without any signs of cell death, as confirmed by the absence of TUNEL, γ-H2A.X, and cleaved caspase 3 fluorescent signals.\",\"target_result\":\"Long-term maintenance of Silk-Ovarioids as free-floating culture without signs of cell death.\",\"number_stated\":true}", "reading": {"parent_value": 42, "unit": "days", "evidence": "Silk-Ovarioids were maintained for up to 42 days as free-floating culture without any signs of cell death, as confirmed by the absence of TUNEL, γ-H2A.X, and cleaved caspase 3 fluorescent signals.", "target_result": "Long-term maintenance of Silk-Ovarioids as free-floating culture without signs of cell death.", "number_stated": true, "source_locator": "chars 2478-2674 of source sha256 2ef0962fbd526763fb499a8a862bc993c2abec247f7efd5434df59811bdda294"}, "recorded_at": "2026-10-31T15:31:20.275533+00:00"}], "agreement": true, "disagreements": {"target_result": {"minimax": "Silk-Ovarioids were maintained for up to 42 days as free-floating culture without any signs of cell death.", "minimax_alt": "In contrast, we successfully established ovarian cortex- and medulla-derived 3D systems using Biosilk, termed Silk-Ovarioids (n = 120). Silk-Ovarioids were maintained for up to 42 days as free-floating culture without any signs of cell death, as confirmed by the absence of TUNEL, γ-H2A.X, and cleaved caspase 3 fluorescent signals.", "decisive": false}, "physical_methods": {"minimax": ["RNA fluorescent in situ hybridization (RNA-FISH)", "immunofluorescence staining"], "minimax_alt": ["3D culture on Biosilk scaffolds (Silk-Ovarioids)", "Free-floating culture", "Culture monitoring every second day for aggregation and growth", "RNA fluorescent in situ hybridization (RNA-FISH)", "Immunofluorescence staining", "TUNEL, γ-H2A.X, and cleaved caspase 3 fluorescence assessment", "Liquid chromatography–tandem mass spectrometry and Luminex assays for steroid and cytokine production"], "decisive": false}, "analysis_methods": {"minimax": ["RNA sequencing", "proteomics", "liquid chromatography–tandem mass spectrometry", "Luminex platform"], "minimax_alt": ["RNA sequencing", "Proteomics", "DESeq2 differential expression analysis", "Gene set enrichment analysis (GSEA) and gene ontology (GO) analysis", "k-means clustering of heatmap genes", "Dampened weighted least squares (DWLS) deconvolution", "Pearson correlation analysis"], "decisive": false}}, "agreement_basis": {"policy": "decisive_fields", "decisive_fields": ["work_type", "number_stated", "parent_value", "unit"]}, "blinded": true}, "human_critique": {"status": "not_run", "reviewer": null, "signed_at": null, "conflict_checked": false, "commentary": null}, "stages": [{"key": "target_materials", "status": "pending", "reason": null, "evidence": null}, {"key": "independent_readings", "status": "passed", "reason": "The independent readings are incomplete or disagree; the source evidence must resolve the difference.", "evidence": {"provider_errors": []}}, {"key": "source_resolution", "status": "pending", "reason": null, "evidence": null}, {"key": "protocol_reconstruction", "status": "pending", "reason": null, "evidence": null}, {"key": "control_execution", "status": "pending", "reason": null, "evidence": null}, {"key": "control_comparison", "status": "pending", "reason": null, "evidence": null}, {"key": "publication", "status": "pending", "reason": null, "evidence": null}], "gaps": ["review.human_critique", "review.machine_critique.passed"]}, "execution": {"state": "absent", "status": "not_run", "mode": null, "runs": [], "gaps": ["execution.not_run"]}, "provenance": {"entities": [{"id": "package:2461491bdd73b5b5be498a14395d79ffb4e578314e7b605149ddef743be80135", "type": "sep_package", "label": "SEP v1 package for pmid:40799620"}], "activities": [{"id": "activity:conversion:pmid:40799620", "type": "conversion", "used": ["package:2461491bdd73b5b5be498a14395d79ffb4e578314e7b605149ddef743be80135"], "agent": "agent:corpus-assay-engine"}], "agents": [{"id": "agent:minimax", "type": "model", "label": "minimax"}, {"id": "agent:minimax_alt", "type": "model", "label": "minimax_alt"}, {"id": "agent:corpus-assay-engine", "type": "software", "label": "Corpus assay engine"}], "source_run_id": "run-20261023T122449232913", "dsl_catalogue_fingerprint": "343fb30756ba6ec3", "capability_table_fingerprint": "2cb3e42f047d2ecf", "snapshot_id": "ba34b49490d9bfaf"}, "lineage": {"parent_id": "2004d83d-8802-4ef0-88e4-36767f6e8243", "parent_hash": "2461491bdd73b5b5be498a14395d79ffb4e578314e7b605149ddef743be80135", "fork_of": null, "generation": 1}, "gaps": ["abstract", "asset:source:pmid:40799620 not verified", "authors", "capability", "corpus_record_absent", "execution.not_run", "method", "review.human_critique", "review.machine_critique.passed", "step:obtain_source_data blocked on data:not_downloaded", "step:run_analysis blocked on no owned computational capability is bound to this experiment", "step:run_analysis input 'materials:the source data behind the published result in pmid:40799620' does not resolve to a declared asset", "targets"]}