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pmid:41399382
Integration of Single-cell and Bulk Transcriptome Analyses Unravels a Macrophage-based Gene Signature for Prognostication and Treatment in Triple-negative Breast Cancer.
International journal of medical sciences · 2026 doi:10.7150/ijms.120593
Paper
partial
Experiment
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Data
partial
Analysis
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Execution
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Complete file
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"reading": {"parent_value": 0.9, "unit": "AUC", "evidence": "This signature demonstrated reliable performance in external validation, particularly for one-year survival (AUC > 0.9).", "target_result": "AUC > 0.9 for one-year survival in external validation", "number_stated": true, "source_locator": "chars 1690-1810 of source sha256 906d70ca5b5d3d2c56b4a6ccca31a3ddcdfc738b6d918cdb2a0d7ad60ac2bdee"}, "recorded_at": "2026-10-31T15:15:34.056930+00:00"}, {"provider": "minimax_alt", "model": "MiniMax-M3", "prompt_version": "replication-target-v2", "prompt_hash": "41fe4c1260199015eb121933a6e71eda66320c98d129b39da69e670625d24ce6", "source_hash": "906d70ca5b5d3d2c56b4a6ccca31a3ddcdfc738b6d918cdb2a0d7ad60ac2bdee", "raw_response": "<think>We need answer JSON only. Need identify single numerical result headline main finding. Source abstract. Likely AUC > 0.9 particularly one-year survival. Need report headline number only, value paper states, unit printed. \"AUC > 0.9\". Parent_value numeric 0.9, unit perhaps \"AUC\". Evidence exact contiguous quote containing number, and attribution whole clause. Could quote: \"This signature demonstrated reliable performance in external validation, particularly for one-year survival (AUC > 0.9).\" Number represented 0.9. Unit must paper prints: AUC likely unit \"AUC\" perhaps parent_value 0.9 and unit \"AUC\". Evidence exact contiguous quote containing number, and attribution whole clause. Could quote: \"This signature demonstrated reliable performance in external validation, particularly for one-year survival (AUC > 0.9).\" Number represented 0.9. Unit must paper prints: AUC likely unit \"AUC\" perhaps parent_value 0.9 and unit \"AUC\". target_result perhaps \"one-year survival AUC > 0.9 in external validation\". Need exact evidence. Is headline numerical result maybe AUC > 0.9. It asks single numerical result replication target. Yes.\n\nNeed make JSON valid. No markdown. \"unit\": \"AUC\" (unit printed? AUC is metric, not unit, but schema string). Could perhaps unit \"\". Yet requirement says unit must be unit paper prints. AUC is dimensionless and paper prints it as label. They probably expect \"AUC\". target_result should state. Evidence must exact contiguous quotation from source and do not shorten. Quote full sentence. Exact text: \"This signature demonstrated reliable performance in external validation, particularly for one-year survival (AUC > 0.9).\" Good.\n\nPotential issue > relation omitted in parent numeric. Could target_result include \"AUC > 0.9\". Fine. parent_value 0.9. JSON number cannot encode inequality. Unit \"AUC\". Need no extra.</think>\n\n{\"parent_value\":0.9,\"unit\":\"AUC\",\"evidence\":\"This signature demonstrated reliable performance in external validation, particularly for one-year survival (AUC > 0.9).\",\"target_result\":\"One-year survival AUC > 0.9 in external validation.\",\"number_stated\":true}", "reading": {"parent_value": 0.9, "unit": "AUC", "evidence": "This signature demonstrated reliable performance in external validation, particularly for one-year survival (AUC > 0.9).", "target_result": "One-year survival AUC > 0.9 in external validation.", "number_stated": true, "source_locator": "chars 1690-1810 of source sha256 906d70ca5b5d3d2c56b4a6ccca31a3ddcdfc738b6d918cdb2a0d7ad60ac2bdee"}, "recorded_at": "2026-10-31T15:15:37.587435+00:00"}], "agreement": false, "disagreements": {"target_result": {"minimax": "One-year survival prediction by the macrophage-based gene signature achieved an AUC > 0.9 in external validation.", "minimax_alt": "The macrophage-based gene signature achieved an AUC > 0.9 for one-year survival in external validation.", "decisive": false}, "analysis_methods": {"minimax": ["Single-cell transcriptomic analysis", "Bulk transcriptome analysis", "Principal component analysis", "Cell clustering and annotation", "Uniform manifold approximation and projection", "CIBERSORTX immune infiltration analysis", "Gene Ontology enrichment analysis", "KEGG pathway enrichment analysis", "Gene set enrichment analysis", "SCENIC transcription-factor analysis", "limma differential expression analysis", "Univariate Cox regression", "Least absolute shrinkage and selection operator (LASSO) analysis", "Kaplan-Meier survival analysis", "Log-rank test", "Receiver operator characteristic curve analysis", "Bootstrap resampling", "Calibration curve analysis", "Decision Curve Analysis (DCA)"], "minimax_alt": ["Single-cell transcriptome analysis", "Bulk transcriptome analysis", "Principal component analysis (PCA)", "Uniform manifold approximation and projection (UMAP)", "CIBERSORTX immune infiltration analysis", "Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis", "Gene set enrichment analysis (GSEA)", "SCENIC transcription-factor analysis", "limma differential-expression analysis", "Univariate Cox regression", "Least absolute shrinkage and selection operator (LASSO) regression using glmnet", "1000-iteration Bootstrap resampling for optimism-corrected performance metrics", "Calibration curve analysis using the rms package", "Decision Curve Analysis (DCA)", "Receiver operator characteristic (ROC) analysis using the pROC package", "Kaplan-Meier survival analysis with log-rank test", "Student's t test", "One-way analysis of variance", "Pearson correlation test", "Spearman correlation test"], "decisive": false}, "statistical_method": {"minimax": "Receiver operator characteristic (ROC) analysis", "minimax_alt": "Receiver operator characteristic (ROC) curve analysis using the pROC package", "decisive": true}}, "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": "blocked", "reason": "The independent readings are incomplete or disagree; 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