Prognostic significance of angiogenesis-associated molecules and Immunologic characteristic in elderly patients with acute myeloid leukemia.

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"chars 1021-1137 of source sha256 0f98f442d7e69b9ce534e09f0384f000c00153913ec9350a0531a500a2897102"}, "evidence": [{"asset": "source:pmid:40670727", "locator": "chars 1021-1137 of source sha256 0f98f442d7e69b9ce534e09f0384f000c00153913ec9350a0531a500a2897102", "quote": "Five angiogenesis-related genes associated with AML prognosis were identified: ECM1, EGLN1, FKBP5, FOXP1, and SIRT2."}]}], "gaps": ["abstract", "authors"]}, "experiment": {"state": "partial", "objective": "the headline numerical result the paper states for its main finding", "steps": [{"id": "read_published_estimate", "order": 1, "name": "Read the published estimate and its interval from the source", "kind": "other", "state": "complete", "blocked_on": null, "description": "The number a replication must land on, and the sentence it came from.", "duration_hours": null, "parameters": {}, "inputs": ["source:pmid:40670727"], "outputs": ["the published estimate, its unit and its interval"], "instruments": [], "reagents": []}, 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[], "reagents": [], "conditions": {}, "gaps": ["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:40670727' does not resolve to a declared asset"]}, "data": {"state": "partial", "assets": [{"id": "source:pmid:40670727", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.1007/s00277-025-06454-3", "sha256": "sha256:0f98f442d7e69b9ce534e09f0384f000c00153913ec9350a0531a500a2897102", "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.1007/s00277-025-06454-3", "version": null, "note": "Source read by the package builder: full_text.", "structure": {"access_state": "full_text"}}], "gaps": ["asset:source:pmid:40670727 not verified"]}, "analysis": {"state": "absent", "methods": [], 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"minimax_alt", "model": "MiniMax-M3", "prompt_version": "full-text-reading-v1", "prompt_hash": "0b473f5763298808ad3dff3c885d1964d254c8dddbd0500255941541afec81aa", "source_hash": "0f98f442d7e69b9ce534e09f0384f000c00153913ec9350a0531a500a2897102", "raw_response_sha256": "sha256:13eafb6507e484d89936038ca8d785d968b66fd34409accdbe5703d0fe8fa112", "raw_response_chars": 67388}], "target_providers": [{"provider": "minimax", "model": "MiniMax-M3.1-Flash", "prompt_version": "replication-target-v2", "prompt_hash": "6390d0b3103eee9f0bd5c01a8e484ce845d926122810586571fbd556456e2b22", "source_hash": "0f98f442d7e69b9ce534e09f0384f000c00153913ec9350a0531a500a2897102", "raw_response": "{\"parent_value\":5,\"unit\":\"genes\",\"evidence\":\"Five angiogenesis-related genes associated with AML prognosis were identified: ECM1, EGLN1, FKBP5, FOXP1, and SIRT2.\",\"target_result\":\"Five angiogenesis-related genes associated with AML prognosis were identified: ECM1, EGLN1, FKBP5, FOXP1, and SIRT2.\",\"number_stated\":true}", "reading": {"parent_value": 5, "unit": "genes", "evidence": "Five angiogenesis-related genes associated with AML prognosis were identified: ECM1, EGLN1, FKBP5, FOXP1, and SIRT2.", "target_result": "Five angiogenesis-related genes associated with AML prognosis were identified: ECM1, EGLN1, FKBP5, FOXP1, and SIRT2.", "number_stated": true, "source_locator": "chars 1021-1137 of source sha256 0f98f442d7e69b9ce534e09f0384f000c00153913ec9350a0531a500a2897102"}, "recorded_at": "2026-10-31T15:21:18.675316+00:00"}, {"provider": "minimax_alt", "model": "MiniMax-M3", "prompt_version": "replication-target-v2", "prompt_hash": "ba4bc2d6d7d2de0df4a13533b07fae79d68a0f4176eb00df54fb230cefdd78f3", "source_hash": "0f98f442d7e69b9ce534e09f0384f000c00153913ec9350a0531a500a2897102", "raw_response": "<think>We need answer JSON only. Need identify headline numerical result paper states for main finding. Source abstract/results says five genes, prognostic signature efficacy maybe no numerical performance metric. Registered target vague \"headline numerical result paper states for its main finding.\" Could be 5 angiogenesis-related genes. Need exact contiguous quote containing number, unit printed. \"Five angiogenesis-related genes associated with AML prognosis were identified: ECM1...\" Number stated in word Five? parent_value numerical, unit perhaps \"genes\" printed. But prompt asks numerical result headline, paper states. Could also cohort 343 samples, but not main finding. The headline result likely five genes. Need evidence exact quote whole clause attribution. Exact contiguous source: \"Results: Five angiogenesis-related genes associated with AML prognosis were identified: ECM1, EGLN1, FKBP5, FOXP1, and SIRT2.\" Number is word \"Five,\" not digit, likely accepted numerical value. They say exact quote contains the number. \"value paper itself states\"; unit paper prints. Unit \"genes\". Evidence can quote. target_result perhaps \"Five angiogenesis-related genes...\" Need decide parent_value 5, unit \"genes\", evidence exact. number_stated true.\n\nCould there be no actual headline numerical metric (e.g., AUC, HR) supplied, and we should set false because \"commendable efficacy\" but no number? User wording likely adversarial: registered target headline numerical result main finding. They expect discern source only provides count five. A replication target might be \"5 genes\". The abstract explicitly headline numerical result: five genes. They want headline number only. We can quote clause.\n\nNeed valid JSON no markdown. Exact evidence perhaps \"Five angiogenesis-related genes associated with AML prognosis were identified: ECM1, EGLN1, FKBP5, FOXP1, and SIRT2.\" It is contiguous and exact. parent_value 5. unit \"genes\". target_result maybe same or concise. They ask \"Report headline number only\" but schema has target_result. We can state result. Ensure no invention. Does unit paper print? It says \"genes\"; unit exact printed. Number written \"Five\" rather than 5 but that's still numerical. Could parent value be 5.\n\nCould \"identified 5 genes\" in conclusion be even more direct exact quote: \"In conclusion, this study firstly comprehensive analyze the prognostic significance of angiogenesis-associated genes in LAML and identified 5 genes, namely ECM1, EGLN1, FKBP5, FOXP1, and SIRT2.\" This has digit 5 and direct attribution to main result. Quote whole clause? Exact contiguous. Evidence could use this sentence. It states \"identified 5 genes\" clearly. Unit \"genes\". Better. \"headline number\" 5. Need perhaps quote whole clause so attribution check: entire sentence is fine. They say do not shorten it. If text links target by parenthetical list etc quote whole clause. Use entire sentence. \"do not shorten it\" refers evidence quotation, not necessarily sentence? Exact contiguous quotation. Whole sentence safest.\n\nTarget_result: \"The study identified 5 genes.\" But that's paraphrase, yet target_result can be. They ask say what text states instead only if false. For true, likely concise. Could say \"5 angiogenesis-related genes were identified.\" Unit separately. \"Report headline number only\" means perhaps target_result should not include unnecessary metrics. Fine.\n\nNeed output exactly schema additional false.</think>\n\n{\"parent_value\":5,\"unit\":\"genes\",\"evidence\":\"In conclusion, this study firstly comprehensive analyze the prognostic significance of angiogenesis-associated genes in LAML and identified 5 genes, namely ECM1, EGLN1, FKBP5, FOXP1, and SIRT2.\",\"target_result\":\"The study identified 5 angiogenesis-related genes.\",\"number_stated\":true}", "reading": {"parent_value": 5, "unit": "genes", "evidence": "In conclusion, this study firstly comprehensive analyze the prognostic significance of angiogenesis-associated genes in LAML and identified 5 genes, namely ECM1, EGLN1, FKBP5, FOXP1, and SIRT2.", "target_result": "The study identified 5 angiogenesis-related genes.", "number_stated": true, "source_locator": "chars 4752-4945 of source sha256 0f98f442d7e69b9ce534e09f0384f000c00153913ec9350a0531a500a2897102"}, "recorded_at": "2026-10-31T15:21:25.027720+00:00"}], "agreement": false, "disagreements": {"analysis_methods": {"minimax": ["Univariate Cox regression analysis", "Least Absolute Shrinkage and Selection Operator (LASSO) analysis with ten-fold cross-validation", "Kaplan-Meier curves with log-rank tests", "Gene Ontology functional enrichment analysis", "Kyoto Encyclopedia of Genes and Genomes pathway enrichment analysis", "Gene Set Enrichment Analysis (GSEA)"], "minimax_alt": ["Optimal-cutoff classification using the survminer R package's surv_cutpoint function", "Univariate Cox regression", "Kaplan-Meier survival analysis with log-rank tests", "Least Absolute Shrinkage and Selection Operator (LASSO) analysis using glmnet", "Ten-fold cross-validation for the LASSO penalty parameter", "Validation using the TCGA_LAML dataset"], "decisive": false}, "statistical_method": {"minimax": "Univariate Cox regression analysis and Least Absolute Shrinkage and Selection Operator (LASSO) analysis", "minimax_alt": "Univariate Cox regression and LASSO analyses", "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:73e165840e4aab3e3b4dfa3123065b94dcc431530da55356d1ef6eb93141429c", "type": "sep_package", "label": "SEP v1 package for pmid:40670727"}], "activities": [{"id": "activity:conversion:pmid:40670727", "type": "conversion", "used": ["package:73e165840e4aab3e3b4dfa3123065b94dcc431530da55356d1ef6eb93141429c"], "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": "2996f67c-d385-408c-9baa-a00c3ed99135", "parent_hash": "73e165840e4aab3e3b4dfa3123065b94dcc431530da55356d1ef6eb93141429c", "fork_of": null, "generation": 1}, "gaps": ["abstract", "asset:source:pmid:40670727 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:40670727' does not resolve to a declared asset", "targets"]}