MoAGNN: a multi-omics hierarchical graph neural network for subtype classification and prognosis prediction in lung adenocarcinoma.

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multi-omics integration method.\",\"target_result\":\"MoAGNN achieved a test accuracy of 0.89 for LUAD subtype classification.\",\"number_stated\":true}", "reading": {"parent_value": 0.89, "unit": "test accuracy", "evidence": "Multi-omics datasets from The Cancer Genome Atlas (TCGA) were used and results showed that MoAGNN achieved a test accuracy of 0.89 for LUAD subtype classification, outperforming conventional models (Random Forest, Support Vector Machine and Multi-Layer Perceptron) as well as state-of-the-art graph-based models MoGCN, a multi-omics integration model based on graph convolutional network, and MOGLAM, an end-to-end interpretable multi-omics integration method.", "target_result": "MoAGNN achieved a test accuracy of 0.89 for LUAD subtype classification.", "number_stated": true, "source_locator": "chars 1250-1710 of source sha256 992470c59ee4a144b2a09573ccad05bde6b9c1b5af90dadab77f7f3c94254e33"}, "recorded_at": "2026-10-31T15:26:31.219954+00:00"}, {"provider": "minimax_alt", "model": "MiniMax-M3", "prompt_version": "replication-target-v2", "prompt_hash": "f8f19e5cc46078ffcc2c1fc30867668c2b03299179f6719b1e795a4a7ba26dda", "source_hash": "992470c59ee4a144b2a09573ccad05bde6b9c1b5af90dadab77f7f3c94254e33", "raw_response": "<think>We need answer JSON only. Need identify single numerical result headline main finding, paper states test accuracy 0.89 for LUAD subtype classification. Unit paper prints likely \"test accuracy\" no percent. Need exact contiguous quotation clause contains number and target attribution. Evidence exact: \"results showed that MoAGNN achieved a test accuracy of 0.89 for LUAD subtype classification\" perhaps whole clause. parent_value 0.89, unit likely \"test accuracy\" or \"accuracy\". Prompt says unit must be unit paper prints. Accuracy unitless. Could set unit \"test accuracy\" perhaps metric. Need target_result string. Since number stated true. Maybe target_result should headline value wording. Schema all fields. JSON valid. Exact quote from source. Need ensure quote whole clause. Source sentence: \"Multi-omics datasets from The Cancer Genome Atlas (TCGA) were used and results showed that MoAGNN achieved a test accuracy of 0.89 for LUAD subtype classification, outperforming...\" We can quote \"results showed that MoAGNN achieved a test accuracy of 0.89 for LUAD subtype classification\" exact contiguous. They ask evidence exact contiguous quotation, whole clause. This is a subordinate clause, sufficient. Could include preceding entire sentence? Better quote whole clause not shortened. \"Multi-omics datasets from The Cancer Genome Atlas (TCGA) were used and results showed that MoAGNN achieved a test accuracy of 0.89 for LUAD subtype classification\" is entire sentence missing period but exact contiguous. \"headline number only: value paper itself states registered target\" Target result perhaps \"0.89 test accuracy for LUAD subtype classification.\" Unit perhaps \"accuracy\" (unitless). They explicitly \"unit must be unit paper prints.\" Paper prints \"test accuracy of 0.89\", no \"%\" symbol. Usually extraction tasks unit might be \"test accuracy\". Could use \"test accuracy\" as unit. Need not report 89%. parent_value numeric 0.89.\n\nPotential ambiguity: \"single numerical result\" headline abstract says 0.89. Yes.\n\nLet's craft:\n{\"parent_value\":0.89,\"unit\":\"test accuracy\",\"evidence\":\"results showed that MoAGNN achieved a test accuracy of 0.89 for LUAD subtype classification\",\"target_result\":\"MoAGNN achieved a test accuracy of 0.89 for LUAD subtype classification.\",\"number_stated\":true}\nEnsure target_result no extra numerical weird? Fine.</think>\n\n{\"parent_value\":0.89,\"unit\":\"test accuracy\",\"evidence\":\"results showed that MoAGNN achieved a test accuracy of 0.89 for LUAD subtype classification\",\"target_result\":\"MoAGNN achieved a test accuracy of 0.89 for LUAD subtype classification.\",\"number_stated\":true}", "reading": {"parent_value": 0.89, "unit": "test accuracy", "evidence": "results showed that MoAGNN achieved a test accuracy of 0.89 for LUAD subtype classification", "target_result": "MoAGNN achieved a test accuracy of 0.89 for LUAD subtype classification.", "number_stated": true, "source_locator": "chars 1321-1412 of source sha256 992470c59ee4a144b2a09573ccad05bde6b9c1b5af90dadab77f7f3c94254e33"}, "recorded_at": "2026-10-31T15:26:34.048097+00:00"}], "agreement": false, "disagreements": {"target_result": {"minimax": "MoAGNN achieved a test accuracy of 0.89 for LUAD subtype classification.", "minimax_alt": "MoAGNN achieved a test accuracy of 0.89 for LUAD subtype classification", "decisive": false}, "analysis_methods": {"minimax": ["MoAGNN (Multi-omics Hierarchical Graph Neural Network)", "Random Forest (RF)", "Support Vector Machine (SVM)", "Multi-Layer Perceptron (MLP)", "MOGLAM", "MoGCN", "Accuracy (ACC)", "Precision", "Recall", "F1-score", "Matthews Correlation Coefficient (MCC)"], "minimax_alt": ["Multi-omics Hierarchical Graph Neural Network (MoAGNN)", "Graph convolution with self-attention–based graph pooling", "Random Forest (RF)", "Support Vector Machine (SVM)", "Multi-Layer Perceptron (MLP)", "MOGLAM", "MoGCN", "Standard classification metrics: Accuracy (ACC), Precision, Recall, F1-score, and Matthews Correlation Coefficient (MCC)"], "decisive": false}, "statistical_method": {"minimax": "", "minimax_alt": "Standard classification metrics: Accuracy (ACC), Precision, Recall, F1-score, and Matthews Correlation Coefficient (MCC)", "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; 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.blocked"]}, "execution": {"state": "absent", "status": "not_run", "mode": null, "runs": [], "gaps": ["execution.not_run"]}, "provenance": {"entities": [{"id": "package:1a4a6655d6b1623a51f36253f3eff6fcdee154a98a449d5eb3a0d2a2aad87609", "type": "sep_package", "label": "SEP v1 package for pmid:41554048"}], "activities": [{"id": "activity:conversion:pmid:41554048", "type": "conversion", "used": ["package:1a4a6655d6b1623a51f36253f3eff6fcdee154a98a449d5eb3a0d2a2aad87609"], "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": "pmid:41554048", "parent_hash": "sha256:7e8e026b4fbabc8cdd0aad148a8cda191b45b0aed390d998a5ef2c022d27cfc1", "fork_of": null, "generation": 2}, "gaps": ["abstract", "asset:source:pmid:41554048 not verified", "authors", "capability", "corpus_record_absent", "execution.not_run", "method", "review.human_critique", "review.machine_critique.blocked", "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:41554048' does not resolve to a declared asset", "targets"]}