{"data":{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:31289534", "kind": "science-record", "revision": 8, "content_hash": "sha256:3907ca7b2dffb5c4f10bf42656a2098d21e84d19a46fe8d700d018d652ac34f6", "created_at": "2026-11-01T15:40:47Z", "updated_at": "2026-11-01T22:44:04Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Bioinformatics prediction and analysis of hub genes and pathways of three types of gynecological cancer.", "doi": "10.3892/ol.2019.10371", "pmid": "31289534", "authors": ["Yanyan Liu", "Yuexiong Yi", "Wanrong Wu", "Kejia Wu", "Wei Zhang"], "journal": "Oncology letters", "year": 2019, "abstract": "Cervical, endometrial and vulvar cancer are three common types of gynecological tumor that threaten the health of females worldwide. Since their underlying mechanisms and associations remain unclear, a comprehensive and systematic bioinformatics analysis is required. The present study downloaded GSE63678 from the GEO database and then performed functional enrichment analyses, including gene ontology and pathway analysis. To further investigate the molecular mechanisms underlying the three types of gynecological cancer, protein-protein interaction (PPI) analysis was performed. A biological network was generated with the guidance of the Kyoto Encyclopedia of Genes and Genomes database and was presented in Cytoscape. A total of 1,219 DEGs were identified for the three types of cancer, and 25 hub genes were revealed. Pathway analysis and the PPI network indicated that four main types of pathway participate in the mechanism of gynecological cancer, including viral infections and cancer formation, tumorigenesis and development, signal transduction, and endocrinology and metabolism. A preliminary gynecological cancer biological network was constructed. Notably, following all analysis, the phosphoinositide 3-kinase (PI3K)/Akt pathway was identified as a potential biomarker pathway. Seven pivotal hub genes (CCNA2, CDK1, CCND1, FGF2, IGF1, BCL2 and VEGFA) of the three gynecological cancer types were proposed. The seven hub genes may serve as targets in gynecological cancer for prevention and early intervention. The PI3K/Akt pathway was identified as a critical biomarker of the three types of gynecological cancer, which may serve a role in the pathogenesis. In summary, the present study provided evidence that could support the treatment of gynecologic tumors in the future.", "claims": [{"id": "claim-method", "statement": "Subsequently, the GEO2R (10) tool and limma package (11) available through Bioconductor (version 3.8) of R Studio (version 3.5) were used to compare the gene expression of the CC, EC and VC groups. P<0.05 and a fold-change >2 were considered to indicate a DEG.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:31289534", "locator": "sections[5] \"Identification of DEGs\" paragraph 2", "quote": "Subsequently, the GEO2R (10) tool and limma package (11) available through Bioconductor (version 3.8) of R Studio (version 3.5) were used to compare the gene expression of the CC, EC and VC groups. P<0.05 and a fold-change >2 were considered to indicate a DEG."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The datasets used and/or analyzed during the present study are available from the corresponding author on reasonable request.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:31289534", "locator": "sections[23] \"Availability of data and materials\" paragraph 2", "quote": "The datasets used and/or analyzed during the present study are available from the corresponding author on reasonable request."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": null, "steps": [{"id": "read_published_estimate", "order": 1, "name": "Read the published estimate from the source", "kind": "other", "state": "complete", "blocked_on": null, "description": "The claim, method and evidence span published with the source article.", "duration_hours": null, "parameters": {}, "inputs": ["source:pmid:31289534"], "outputs": ["the published estimate and its evidence"], "instruments": [], "reagents": []}, {"id": "obtain_source_data", "order": 2, "name": "Obtain the source data from the named repository", "kind": "data-preparation", "state": "complete", "blocked_on": null, "description": "The GEO series accession resolves and its sample accessions are listed. This lane did not download the dataset or read its licence.", "duration_hours": null, "parameters": {}, "inputs": ["data:geo:GSE63678"], "outputs": ["the source data with its repository provenance"], "instruments": [], "reagents": []}, {"id": "run_analysis", "order": 3, "name": "Run the published analysis", "kind": "analysis", "state": "complete", "blocked_on": null, "description": "Apply the paper's statistical method to the resolved series and compare the result with the published target.", "duration_hours": null, "parameters": {}, "inputs": ["data:geo:GSE63678"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:31289534", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.3892/ol.2019.10371", "sha256": "sha256:4860a635e20e61bbe72c4630245543373ac37f57b4975e22353cc1f2fbfe9653", "bytes": 46281, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.3892/ol.2019.10371", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC6539991", "source": "europe_pmc_fulltext", "coverage": "whole_body", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:GSE63678", "role": "raw", "format": "geo-series", "media_type": "application/vnd.ncbi.geo-series+json", "uri": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE63678", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE63678", "version": null, "note": "The datasets used and/or analyzed during the present study are available from the corresponding author on reasonable request.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The datasets used and/or analyzed during the present study are available from the corresponding author on reasonable request.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM1555075", "GSM1555076", "GSM1555077", "GSM1555078", "GSM1555079", "GSM1555080", "GSM1555081", "GSM1555082", "GSM1555083", "GSM1555084", "GSM1555085", "GSM1555086", "GSM1555087", "GSM1555088", "GSM1555089", "GSM1555090", "GSM1555091", "GSM1555092", "GSM1555093", "GSM1555094", "GSM1555095", "GSM1555096", "GSM1555097", "GSM1555098", "GSM1555099", "GSM1555100", "GSM1555101", "GSM1555102", "GSM1555103", "GSM1555104", "GSM1555105", "GSM1555106", "GSM1555107", "GSM1555108", "GSM1555109"], "sample_count": 35, "group_sizes": null, "group_sizes_basis": null, "platform": "571", "taxon": "Homo sapiens", "title": "Expression data from Vulvar, Cervical, Endometrial Carcinoma tissue", "resolution_checked_at": "2026-11-01T15:39:55Z", "resolution_check": "identifier_resolution_only_no_download_no_licence_read", "downloaded": false, "licence_read": false}}, {"id": "asset:table:pmid:31289534:1", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:1d54a4c1bbaf44a10ef2f324a0f436ec59d065cbfbc52d0def7092c7b61850b7", "bytes": 7242, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[16]/table-wrap[1]#tII-ol-0-0-10371", "version": null, "note": "Pathways enriched in three types of gynecological cancer.", "structure": {"pmcid": "PMC6539991", "section_index": 8, "section_title": "Pathway enrichment analysis of the hub genes", "row_count": 87, "column_count": 4}, "table": {"label": "Table II.", "caption": "Pathways enriched in three types of gynecological cancer.", "rows": [["Pathway", "Regulation", "P-value", "Genes in the pathway"], ["Viral carcinogenesis", "–", "3.43×10−9", "HIST1H2BD, CCND1, CDK1, HIST1H2BH, CDC20, PIK3R1, HIST1H2BK, CCNA2"], ["Hepatitis B", "–", "9.66×10−9", "BIRC5, CCND1, BCL2, PIK3R1, PCNA, CXCL8, CCNA2"], ["AMPK signaling pathway", "–", "1.13×10−7", "CCND1, PPP2R5C, IGF1, ACACB, PIK3R1, CCNA2"], ["Oocyte meiosis", "–", "1.31×10−7", "AURKA, PPP2R5C, IGF1, CDK1, CDC20, CCNB1"], ["Cell cycle", "Up", "1.31×10−7", "CCND1, CDK1, CDC20, PCNA, CCNA2, CCNB1"], ["EGFR tyrosine kinase inhibitor resistance", "–", "4.35×10−7", "FGF2, BCL2, IGF1, PIK3R1, VEGFA"], ["Pathways in cancer", "–", "6.44×10−7", "FGF2, BIRC5, CCND1, BCL2, IGF1, PIK3R1, CXCL8, VEGFA"], ["Progesterone-mediated oocyte maturation", "–", "1.15×10−6", "IGF1, CDK1, PIK3R1, CCNA2, CCNB1"], ["AGE-RAGE signaling pathway in diabetic complications", "–", "1.35×10−6", "CCND1, BCL2, PIK3R1, CXCL8, VEGFA"], ["HIF-1 signaling pathway", "–", "1.49×10−6", "BCL2, IGF1, GAPDH, PIK3R1, VEGFA"], ["Focal adhesion", "–", "2.13×10−6", "CCND1, BCL2, IGF1, FYN, PIK3R1, VEGFA"], ["PI3K-Akt signaling pathway", "–", "3.48×10−6", "FGF2, CCND1, BCL2, PPP2R5C, IGF1, PIK3R1, VEGFA"], ["p53 Signaling Pathway", "–", "3.94×10−6", "CCND1, BCL2, PCNA"], ["IL-7 Signal Transduction", "Down", "4.77×10−6", "BCL2, FYN, PIK3R1"], ["Colorectal cancer", "–", "5.72×10−6", "BIRC5, CCND1, BCL2, PIK3R1"], ["p53 signaling pathway", "–", "1.00×10−5", "CCND1, IGF1, CDK1, CCNB1"], ["Melanoma", "–", "1.00×10−5", "FGF2, CCND1, IGF1, PIK3R1"], ["Cyclins and Cell Cycle Regulation", "Up", "1.23×10−5", "CCND1, CDK1, CCNB1"], ["Platinum drug resistance", "–", "1.25×10−5", "BIRC5, BCL2, PIK3R1, TOP2A"], ["Regulation of BAD phosphorylation", "Down", "1.80×10−5", "BCL2, IGF1, PIK3R1"], ["Prostate cancer", "–", "2.52×10−5", "CCND1, BCL2, IGF1, PIK3R1"], ["Endocrine resistance", "–", "3.71×10−5", "CCND1, BCL2, IGF1, PIK3R1"], ["Proteoglycans in cancer", "–", "4.47×10−5", "FGF2, CCND1, IGF1, PIK3R1, VEGFA"], ["Bladder cancer", "Up", "7.25×10−5", "CCND1, CXCL8, VEGFA"], ["Sphingolipid signaling pathway", "–", "8.32×10−5", "BCL2, PPP2R5C, FYN, PIK3R1"], ["FoxO signaling pathway", "–", "1.29×10−4", "CCND1, IGF1, PIK3R1, CCNB1"], ["Systemic lupus erythematosus", "Up", "1.32×10−4", "H2AFZ, HIST1H2BD, HIST1H2BH, HIST1H2BK"], ["NFAT and Hypertrophy of the heart (Transcription in the broken heart)", "Down", "1.66×10−4", "FGF2, IGF1, PIK3R1"], ["Breast cancer", "–", "1.80×10−4", "FGF2, CCND1, IGF1, PIK3R1"], ["Activation of Src by Protein-tyrosine phosphatase alpha", "Up", "2.11×10−4", "CDK1, CCNB1"], ["Sonic Hedgehog (SHH) Receptor Ptc1 Regulates cell cycle", "Up", "2.11×10−4", "CDK1, CCNB1"], ["AKAP95 role in mitosis and chromosome dynamics", "Up", "2.52×10−4", "CDK1, CCNB1"], ["Glioma", "–", "2.75×10−4", "CCND1, IGF1, PIK3R1"], ["Pancreatic cancer", "–", "2.75×10−4", "CCND1, PIK3R1, VEGFA"], ["Expression of cyclins regulates progression through the cell cycle by activating cyclin-dependent kinases.", "Up", "2.98×10−4", "CCND1, CCNA2"], ["The IGF-1 Receptor and Longevity", "Down", "4.00×10−4", "IGF1, PIK3R1"], ["Alcoholism", "Up", "4.22×10−4", "H2AFZ, HIST1H2BD, HIST1H2BH, HIST1H2BK"], ["B Cell Survival Pathway", "–", "4.57×10−4", "BIRC5, PIK3R1"], ["Small cell lung cancer", "–", "6.12×10−4", "CCND1, BCL2, PIK3R1"], ["Stathmin and breast cancer resistance to antimicrotubule agents", "Up", "6.48×10−4", "CDK1, CCNB1"], ["Epstein-Barr virus infection", "–", "6.64×10−4", "BCL2, CDK1, PIK3R1, CCNA2"], ["Skeletal muscle hypertrophy is regulated via AKT/mTOR pathway", "Down", "7.19×10−4", "IGF1, PIK3R1"], ["Rap1 signaling pathway", "–", "7.54×10−4", "FGF2, IGF1, PIK3R1, VEGFA"], ["IGF-1 Signaling Pathway", "Down", "7.94×10−4", "IGF1, PIK3R1"], ["Ras signaling pathway", "–", "1.01×10−3", "FGF2, IGF1, PIK3R1, VEGFA"], ["Erk and PI-3 Kinase Are Necessary for Collagen Binding in Corneal Epithelia", "Down", "1.04×10−3", "FYN, PIK3R1"], ["Cell Cycle: G2/M Checkpoint", "Up", "1.04×10−3", "CDK1, CCNB1"], ["Influence of Ras and Rho proteins on G1 to S Transition", "–", "1.22×10−3", "CCND1, PIK3R1"], ["Genes related to IL4 rceptor signaling in B lymphocytes", "Down", "1.32×10−3", "BCL2, PIK3R1"], ["Inactivation of Gsk3 by AKT causes accumulation of b-catenin in Alveolar Macrophages", "Up", "1.32×10−3", "CCND1, PIK3R1"], ["Cholinergic synapse", "Down", "1.41×10−3", "BCL2, FYN, PIK3R1"], ["Cell Cycle: G1/S Check Point", "Up", "1.42×10−3", "CCND1, CDK1"], ["VEGF, Hypoxia, and Angiogenesis", "–", "1.52×10−3", "PIK3R1, VEGFA"], ["HTLV–I infection", "–", "1.57×10−3", "CCND1, CDC20, PIK3R1, PCNA"], ["Control of skeletal myogenesis by HDAC and calcium/calmodulin-dependent kinase (CaMK)", "Down", "1.63×10−3", "IGF1, PIK3R1"], ["Apoptosis-multiple species", "–", "1.97×10−3", "BIRC5, BCL2"], ["How Progesterone Initiates Oocyte Membrane", "Up", "2.09×10−3", "CDK1, CCNB1"], ["Measles", "–", "2.36×10−3", "CCND1, FYN, PIK3R1"], ["Aldosterone-regulated sodium reabsorption", "Down", "2.47×10−3", "IGF1, PIK3R1"], ["Apoptosis", "–", "2.56×10−3", "BIRC5, BCL2, PIK3R1"], ["IL-2 Receptor Beta Chain in T cell Activation", "Down", "2.60×10−3", "BCL2, PIK3R1"], ["Signaling pathways regulating pluripotency of stem cells", "Down", "2.62×10−3", "FGF2, IGF1, PIK3R1"], ["Fluid shear stress and atherosclerosis", "–", "2.78×10−3", "BCL2, PIK3R1, VEGFA"], ["Phospholipase D signaling pathway", "–", "3.01×10−3", "FYN, PIK3R1, CXCL8"], ["Jak-STAT signaling pathway", "–", "3.63×10−3", "CCND1, BCL2, PIK3R1"], ["Members of the BCR signaling pathway", "Down", "3.80×10−3", "BCL2, PIK3R1"], ["Hedgehog signaling pathway", "–", "3.96×10−3", "CCND1, BCL2"], ["T Cell Receptor Signaling Pathway", "Down", "3.96×10−3", "FYN, PIK3R1"], ["Endometrial cancer", "–", "4.47×10−3", "CCND1, PIK3R1"], ["Genes encoding secreted soluble factors", "–", "4.58×10−3", "FGF2, IGF1, CXCL8, VEGFA"], ["Acute myeloid leukemia", "–", "5.39×10−3", "CCND1, PIK3R1"], ["Non-small cell lung cancer", "–", "5.97×10−3", "CCND1, PIK3R1"], ["VEGF signaling pathway", "–", "6.18×10−3", "PIK3R1, VEGFA"], ["Viral myocarditis", "–", "6.18×10−3", "CCND1, FYN"], ["Longevity regulating pathway-multiple species", "Down", "6.80×10−3", "IGF1, PIK3R1"], ["Renal cell carcinoma", "–", "7.45×10−3", "PIK3R1, VEGFA"], ["Fc epsilon RI signaling pathway", "–", "8.13×10−3", "FYN, PIK3R1"], ["Prolactin signaling pathway", "–", "8.60×10−3", "CCND1, PIK3R1"], ["Chronic myeloid leukemia", "–", "8.84×10−3", "CCND1, PIK3R1"], ["Longevity regulating pathway", "–", "1.36×10−2", "IGF1, PIK3R1"], ["Genes related to Wnt-mediated signal transduction", "Up", "1.36×10−2", "CCND1, GAPDH"], ["Rheumatoid arthritis", "Up", "1.39×10−2", "CXCL8, VEGFA"], ["NF-kappa B signaling pathway", "–", "1.54×10−2", "BCL2, CXCL8"], ["Amoebiasis", "–", "1.57×10−2", "PIK3R1, CXCL8"], ["Cdc25 activates the cdc2/cyclin B complex to induce the G2/M transition.", "Up", "1.60×10−2", "CDK1"], ["Inflammatory mediator regulation of TRP channels", "Down", "1.60×10−2", "IGF1, PIK3R1"]], "row_count": 87, "column_count": 4, "numeric_cells": 100, "header_rows": 1, "locator": "section[16]/table-wrap[1]#tII-ol-0-0-10371"}}, {"id": "asset:table:pmid:31289534:2", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:85d8c2990d39974133b6b8ec97e3b3308a1e53b8a7633ab612ad78c6a62ae41f", "bytes": 1700, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[14]/table-wrap[1]#tI-ol-0-0-10371", "version": null, "note": "Topological parameters of the hub genes.", "structure": {"pmcid": "PMC6539991", "section_index": 14, "section_title": "Hub genes and PPI network", "row_count": 27, "column_count": 6}, "table": {"label": "Table I.", "caption": "Topological parameters of the hub genes.", "rows": [["Gene", "Degree", "Betweeness", "Closeness", "Group", "Regulation"], ["Mean", "13", "2081.81034", "3.73×10−4", "–", "–"], ["CDK1", "115", "20448.4838", "5.21×10−4", "CC/EC", "Up"], ["CCNB1", "100", "16335.9142", "5.23×10−4", "CC/EC", "Up"], ["CDC20", "92", "8148.54809", "4.76×10−4", "EC", "Up"], ["CCNA2", "91", "8126.90458", "4.89×10−4", "CC/EC/VC", "Up"], ["AURKA", "90", "9181.94344", "4.76×10−4", "EC/VC", "Up"], ["TOP2A", "87", "21409.6376", "5.15×10−4", "EC/VC", "Up"], ["UBE2C", "82", "14916.6491", "4.82×10−4", "EC/VC", "Up"], ["BIRC5", "80", "16279.0157", "5.13×10−4", "EC/VC", "Up"], ["PCNA", "62", "26080.2036", "5.25×10−4", "CC/EC", "Up"], ["VEGFA", "56", "32712.0335", "5.43×10−4", "VC", "Up"], ["PIK3R1", "46", "24576.8505", "4.91×10−4", "VC", "Down"], ["HIST1H2BK", "43", "8689.20717", "4.70×10−4", "CC/VC", "Up"], ["HIST1H2BD", "43", "8689.20717", "4.70×10−4", "VC", "Up"], ["HIST1H2BH", "42", "8291.98846", "4.70×10−4", "VC", "Up"], ["ACACB", "41", "40853.547", "4.98×10−4", "VC", "Down"], ["CXCL8", "40", "28927.396", "5.16×10−4", "VC", "Up"], ["H2AFZ", "39", "8793.56814", "4.67×10−4", "CC", "Up"], ["IGF1", "38", "16278.2011", "5.07×10−4", "CC/VC", "Down"], ["ACLY", "37", "34157.4527", "4.81×10−4", "EC", "Up"], ["CCND1", "36", "28548.907", "5.39×10−4", "EC", "Up"], ["GAPDH", "33", "41598.1258", "5.39×10−4", "EC", "Up"], ["PPP2R5C", "32", "10238.8057", "4.75×10−4", "CC", "UP"], ["FYN", "32", "17254.3572", "5.22×10−4", "CC/VC", "Down"], ["FGF2", "32", "19465.3169", "5.20×10−4", "EC", "Down"], ["BCL2", "32", "17923.6004", "4.86×10−4", "VC", "Down"]], "row_count": 27, "column_count": 6, "numeric_cells": 79, "header_rows": 1, "locator": "section[14]/table-wrap[1]#tI-ol-0-0-10371"}}, {"id": "asset:table:pmid:31289534:3", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:1d54a4c1bbaf44a10ef2f324a0f436ec59d065cbfbc52d0def7092c7b61850b7", "bytes": 7242, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[16]/table-wrap[1]#tII-ol-0-0-10371", "version": null, "note": "Pathways enriched in three types of gynecological cancer.", "structure": {"pmcid": "PMC6539991", "section_index": 16, "section_title": "Pathway enrichment analysis of the hub genes", "row_count": 87, "column_count": 4}, "table": {"label": "Table II.", "caption": "Pathways enriched in three types of gynecological cancer.", "rows": [["Pathway", "Regulation", "P-value", "Genes in the pathway"], ["Viral carcinogenesis", "–", "3.43×10−9", "HIST1H2BD, CCND1, CDK1, HIST1H2BH, CDC20, PIK3R1, HIST1H2BK, CCNA2"], ["Hepatitis B", "–", "9.66×10−9", "BIRC5, CCND1, BCL2, PIK3R1, PCNA, CXCL8, CCNA2"], ["AMPK signaling pathway", "–", "1.13×10−7", "CCND1, PPP2R5C, IGF1, ACACB, PIK3R1, CCNA2"], ["Oocyte meiosis", "–", "1.31×10−7", "AURKA, PPP2R5C, IGF1, CDK1, CDC20, CCNB1"], ["Cell cycle", "Up", "1.31×10−7", "CCND1, CDK1, CDC20, PCNA, CCNA2, CCNB1"], ["EGFR tyrosine kinase inhibitor resistance", "–", "4.35×10−7", "FGF2, BCL2, IGF1, PIK3R1, VEGFA"], ["Pathways in cancer", "–", "6.44×10−7", "FGF2, BIRC5, CCND1, BCL2, IGF1, PIK3R1, CXCL8, VEGFA"], ["Progesterone-mediated oocyte maturation", "–", "1.15×10−6", "IGF1, CDK1, PIK3R1, CCNA2, CCNB1"], ["AGE-RAGE signaling pathway in diabetic complications", "–", "1.35×10−6", "CCND1, BCL2, PIK3R1, CXCL8, VEGFA"], ["HIF-1 signaling pathway", "–", "1.49×10−6", "BCL2, IGF1, GAPDH, PIK3R1, VEGFA"], ["Focal adhesion", "–", "2.13×10−6", "CCND1, BCL2, IGF1, FYN, PIK3R1, VEGFA"], ["PI3K-Akt signaling pathway", "–", "3.48×10−6", "FGF2, CCND1, BCL2, PPP2R5C, IGF1, PIK3R1, VEGFA"], ["p53 Signaling Pathway", "–", "3.94×10−6", "CCND1, BCL2, PCNA"], ["IL-7 Signal Transduction", "Down", "4.77×10−6", "BCL2, FYN, PIK3R1"], ["Colorectal cancer", "–", "5.72×10−6", "BIRC5, CCND1, BCL2, PIK3R1"], ["p53 signaling pathway", "–", "1.00×10−5", "CCND1, IGF1, CDK1, CCNB1"], ["Melanoma", "–", "1.00×10−5", "FGF2, CCND1, IGF1, PIK3R1"], ["Cyclins and Cell Cycle Regulation", "Up", "1.23×10−5", "CCND1, CDK1, CCNB1"], ["Platinum drug resistance", "–", "1.25×10−5", "BIRC5, BCL2, PIK3R1, TOP2A"], ["Regulation of BAD phosphorylation", "Down", "1.80×10−5", "BCL2, IGF1, PIK3R1"], ["Prostate cancer", "–", "2.52×10−5", "CCND1, BCL2, IGF1, PIK3R1"], ["Endocrine resistance", "–", "3.71×10−5", "CCND1, BCL2, IGF1, PIK3R1"], ["Proteoglycans in cancer", "–", "4.47×10−5", "FGF2, CCND1, IGF1, PIK3R1, VEGFA"], ["Bladder cancer", "Up", "7.25×10−5", "CCND1, CXCL8, VEGFA"], ["Sphingolipid signaling pathway", "–", "8.32×10−5", "BCL2, PPP2R5C, FYN, PIK3R1"], ["FoxO signaling pathway", "–", "1.29×10−4", "CCND1, IGF1, PIK3R1, CCNB1"], ["Systemic lupus erythematosus", "Up", "1.32×10−4", "H2AFZ, HIST1H2BD, HIST1H2BH, HIST1H2BK"], ["NFAT and Hypertrophy of the heart (Transcription in the broken heart)", "Down", "1.66×10−4", "FGF2, IGF1, PIK3R1"], ["Breast cancer", "–", "1.80×10−4", "FGF2, CCND1, IGF1, PIK3R1"], ["Activation of Src by Protein-tyrosine phosphatase alpha", "Up", "2.11×10−4", "CDK1, CCNB1"], ["Sonic Hedgehog (SHH) Receptor Ptc1 Regulates cell cycle", "Up", "2.11×10−4", "CDK1, CCNB1"], ["AKAP95 role in mitosis and chromosome dynamics", "Up", "2.52×10−4", "CDK1, CCNB1"], ["Glioma", "–", "2.75×10−4", "CCND1, IGF1, PIK3R1"], ["Pancreatic cancer", "–", "2.75×10−4", "CCND1, PIK3R1, VEGFA"], ["Expression of cyclins regulates progression through the cell cycle by activating cyclin-dependent kinases.", "Up", "2.98×10−4", "CCND1, CCNA2"], ["The IGF-1 Receptor and Longevity", "Down", "4.00×10−4", "IGF1, PIK3R1"], ["Alcoholism", "Up", "4.22×10−4", "H2AFZ, HIST1H2BD, HIST1H2BH, HIST1H2BK"], ["B Cell Survival Pathway", "–", "4.57×10−4", "BIRC5, PIK3R1"], ["Small cell lung cancer", "–", "6.12×10−4", "CCND1, BCL2, PIK3R1"], ["Stathmin and breast cancer resistance to antimicrotubule agents", "Up", "6.48×10−4", "CDK1, CCNB1"], ["Epstein-Barr virus infection", "–", "6.64×10−4", "BCL2, CDK1, PIK3R1, CCNA2"], ["Skeletal muscle hypertrophy is regulated via AKT/mTOR pathway", "Down", "7.19×10−4", "IGF1, PIK3R1"], ["Rap1 signaling pathway", "–", "7.54×10−4", "FGF2, IGF1, PIK3R1, VEGFA"], ["IGF-1 Signaling Pathway", "Down", "7.94×10−4", "IGF1, PIK3R1"], ["Ras signaling pathway", "–", "1.01×10−3", "FGF2, IGF1, PIK3R1, VEGFA"], ["Erk and PI-3 Kinase Are Necessary for Collagen Binding in Corneal Epithelia", "Down", "1.04×10−3", "FYN, PIK3R1"], ["Cell Cycle: G2/M Checkpoint", "Up", "1.04×10−3", "CDK1, CCNB1"], ["Influence of Ras and Rho proteins on G1 to S Transition", "–", "1.22×10−3", "CCND1, PIK3R1"], ["Genes related to IL4 rceptor signaling in B lymphocytes", "Down", "1.32×10−3", "BCL2, PIK3R1"], ["Inactivation of Gsk3 by AKT causes accumulation of b-catenin in Alveolar Macrophages", "Up", "1.32×10−3", "CCND1, PIK3R1"], ["Cholinergic synapse", "Down", "1.41×10−3", "BCL2, FYN, PIK3R1"], ["Cell Cycle: G1/S Check Point", "Up", "1.42×10−3", "CCND1, CDK1"], ["VEGF, Hypoxia, and Angiogenesis", "–", "1.52×10−3", "PIK3R1, VEGFA"], ["HTLV–I infection", "–", "1.57×10−3", "CCND1, CDC20, PIK3R1, PCNA"], ["Control of skeletal myogenesis by HDAC and calcium/calmodulin-dependent kinase (CaMK)", "Down", "1.63×10−3", "IGF1, PIK3R1"], ["Apoptosis-multiple species", "–", "1.97×10−3", "BIRC5, BCL2"], ["How Progesterone Initiates Oocyte Membrane", "Up", "2.09×10−3", "CDK1, CCNB1"], ["Measles", "–", "2.36×10−3", "CCND1, FYN, PIK3R1"], ["Aldosterone-regulated sodium reabsorption", "Down", "2.47×10−3", "IGF1, PIK3R1"], ["Apoptosis", "–", "2.56×10−3", "BIRC5, BCL2, PIK3R1"], ["IL-2 Receptor Beta Chain in T cell Activation", "Down", "2.60×10−3", "BCL2, PIK3R1"], ["Signaling pathways regulating pluripotency of stem cells", "Down", "2.62×10−3", "FGF2, IGF1, PIK3R1"], ["Fluid shear stress and atherosclerosis", "–", "2.78×10−3", "BCL2, PIK3R1, VEGFA"], ["Phospholipase D signaling pathway", "–", "3.01×10−3", "FYN, PIK3R1, CXCL8"], ["Jak-STAT signaling pathway", "–", "3.63×10−3", "CCND1, BCL2, PIK3R1"], ["Members of the BCR signaling pathway", "Down", "3.80×10−3", "BCL2, PIK3R1"], ["Hedgehog signaling pathway", "–", "3.96×10−3", "CCND1, BCL2"], ["T Cell Receptor Signaling Pathway", "Down", "3.96×10−3", "FYN, PIK3R1"], ["Endometrial cancer", "–", "4.47×10−3", "CCND1, PIK3R1"], ["Genes encoding secreted soluble factors", "–", "4.58×10−3", "FGF2, IGF1, CXCL8, VEGFA"], ["Acute myeloid leukemia", "–", "5.39×10−3", "CCND1, PIK3R1"], ["Non-small cell lung cancer", "–", "5.97×10−3", "CCND1, PIK3R1"], ["VEGF signaling pathway", "–", "6.18×10−3", "PIK3R1, VEGFA"], ["Viral myocarditis", "–", "6.18×10−3", "CCND1, FYN"], ["Longevity regulating pathway-multiple species", "Down", "6.80×10−3", "IGF1, PIK3R1"], ["Renal cell carcinoma", "–", "7.45×10−3", "PIK3R1, VEGFA"], ["Fc epsilon RI signaling pathway", "–", "8.13×10−3", "FYN, PIK3R1"], ["Prolactin signaling pathway", "–", "8.60×10−3", "CCND1, PIK3R1"], ["Chronic myeloid leukemia", "–", "8.84×10−3", "CCND1, PIK3R1"], ["Longevity regulating pathway", "–", "1.36×10−2", "IGF1, PIK3R1"], ["Genes related to Wnt-mediated signal transduction", "Up", "1.36×10−2", "CCND1, GAPDH"], ["Rheumatoid arthritis", "Up", "1.39×10−2", "CXCL8, VEGFA"], ["NF-kappa B signaling pathway", "–", "1.54×10−2", "BCL2, CXCL8"], ["Amoebiasis", "–", "1.57×10−2", "PIK3R1, CXCL8"], ["Cdc25 activates the cdc2/cyclin B complex to induce the G2/M transition.", "Up", "1.60×10−2", "CDK1"], ["Inflammatory mediator regulation of TRP channels", "Down", "1.60×10−2", "IGF1, PIK3R1"]], "row_count": 87, "column_count": 4, "numeric_cells": 100, "header_rows": 1, "locator": "section[16]/table-wrap[1]#tII-ol-0-0-10371"}}], "gaps": ["asset:data:geo:GSE63678 not downloaded", "asset:data:geo:GSE63678 licence not read"]}, "analysis": {"state": "complete", "methods": [{"id": "method-1", "family": "differential_expression", "specific": "limma_voom", "label": "Differential expression analysis", "dsl_operations": ["normalise_counts", "differential_expression_fit", "fdr_bh"], "missing_operations": [], "expressible": true, "parameters": {}, "data_shapes": ["count_matrix_with_condition"], "evidence": {"score": 1.0, "band": "verbatim", "quote": "Subsequently, the GEO2R (10) tool and limma package (11) available through Bioconductor (version 3.8) of R Studio (version 3.5) were used to compare the gene expression of the CC, EC and VC groups. P<0.05 and a fold-change >2 were considered to indicate a DEG."}}, {"id": "method-2", "family": "network_analysis", "specific": "ppi_network", "label": "Network / pathway analysis", "dsl_operations": ["build_graph", "centrality_scores", "pathway_enrich"], "missing_operations": [], "expressible": true, "parameters": {}, "data_shapes": ["edge_list"], "evidence": {"score": 0.7, "band": "medium", "quote": "protein-protein interaction"}}, {"id": "method-3", "family": "network_analysis", "specific": "pathway_enrichment", "label": "Network / pathway analysis", "dsl_operations": ["pathway_enrich"], "missing_operations": [], "expressible": true, "parameters": {}, "data_shapes": ["edge_list"], "evidence": {"score": 0.8, "band": "high", "quote": "GO enrichment"}}], "targets": [], "gaps": []}, "capability": {"state": "complete", "requirements": [{"capability_id": "capability:computational_analysis", "label": "Computational analysis platform", "assay_families": ["meta_analysis", "machine_learning", "survival_analysis", "statistical_regression", "pca", "molecular_docking", "network_analysis", "differential_expression", "gwas"], "availability_state": "owned", "tier_unlocked": "R1", "candidate": "Automated Assays Laravel application and simulated adapters"}], "gaps": []}, "readiness": {"state": "complete", "tier": "R1", "blocking_axis": "none", "blocked_on": "nothing:replicable_now", "axes": {"method": {"tier": "R1", "expressible": true, "required_operations": ["normalise_counts", "differential_expression_fit", "fdr_bh"], "missing_operations": [], "basis": "The paper names the method it used and the corpus's method extractor maps it onto the DSL catalogue: limma_voom."}, "capability": {"tier": "R1", "capability_id": "capability:computational_analysis", "availability_state": "owned", "basis": "The computational analysis is owned. The physical bench the paper used is not, so a physical validation cannot be run here."}, "data": {"tier": "R1", "reachable": true, "accessions": ["GSE63678"], "resolved_accessions": ["GSE63678"], "statements": ["The datasets used and/or analyzed during the present study are available from the corresponding author on reasonable request."], "basis": "The paper names GSE63678 in Gene Expression Omnibus (GEO) and the accession resolves in the repository. No dataset was downloaded and no licence was read."}}, "can_run": {"dsl_operations": ["normalise_counts", "differential_expression_fit", "fdr_bh"], "assets": ["source:pmid:31289534", "data:geo:GSE63678", "asset:table:pmid:31289534:1", "asset:table:pmid:31289534:2", "asset:table:pmid:31289534:3"], "steps": ["run_analysis"]}, "must_build": {"dsl_operations": [], "converters": [], "readers": [], "capabilities": [], "data_gaps": ["data:geo:GSE63678"]}, "gaps": []}, "review": {"state": "partial", "machine_critique": {"kind": "extraction_review", "reader": {"model": "MiniMax-M3.1-Flash", "provider": "minimax", "provider_family": "minimax", "read_at": "2026-10-31T18:15:24Z", "independence": "single_reader"}, "evidence_check": {"method": "verbatim", "availability": "verbatim"}, "calls": 3, "usage": {"prompt_tokens": 37083, "completion_tokens": 937, "cached_tokens": 785}}, "human_critique": null, "stages": [{"id": "extraction", "state": "complete", "reader": "MiniMax-M3.1-Flash", "provider": "minimax"}], "gaps": ["review.independent_reader", "review.machine_critique", "review.human_critique"]}, "execution": {"state": "absent", "status": "not_run", "mode": null, "runs": [], "gaps": ["execution.not_run"]}, "provenance": {"entities": [{"id": "pmid:31289534", "type": "paper", "label": "pmid:31289534"}, {"id": "source:pmid:31289534", "type": "manuscript", "label": "PMID 31289534 full text"}, {"id": "data:geo:GSE63678", "type": "dataset", "label": "GEO GSE63678"}], "activities": [{"id": "activity-reading-sci-2026-11-01", "type": "classification", "used": [{"id": "pmid:31289534", "type": "paper", "label": "pmid:31289534"}, {"id": "source:pmid:31289534", "type": "manuscript", "label": "PMID 31289534 full text"}, {"id": "data:geo:GSE63678", "type": "dataset", "label": "GEO GSE63678"}], "agent": "agent:corpus-assay-engine"}, {"id": "activity-read-31289534", "type": "extraction", "used": ["source:pmid:31289534"], "agent": "agent:minimax-reader"}, {"id": "activity-resolve-GSE63678", "type": "accession_resolution", "used": ["data:geo:GSE63678"], "agent": "agent:corpus-assay-engine"}], "agents": [{"id": "agent:corpus-assay-engine", "type": "software", "label": "Corpus assay engine"}, {"id": "agent:minimax-reader", "type": "software", "label": "MiniMax literature reader"}], "source_run_id": "reading-sci-2026-11-01", "dsl_catalogue_fingerprint": "343fb30756ba6ec3", "capability_table_fingerprint": "2cb3e42f047d2ecf", "snapshot_id": "ba34b49490d9bfaf"}, "lineage": {"parent_id": "pmid:31289534", "parent_hash": "sha256:744397fa4cb82d4339305af6bf26314d549136040890aa674e9047447e9938f7", "fork_of": null, "generation": 7}, "gaps": ["asset:data:geo:GSE63678 licence not read", "asset:data:geo:GSE63678 not downloaded", "execution.not_run", "review.human_critique", "review.independent_reader", "review.machine_critique"], "assays": [{"role": "analysis", "definition_id": "differential_expression", "definition_version": "f2132e96ae6c7a4e", "definition_digest": null, "required_operations": ["normalise_counts", "differential_expression_fit", "fdr_bh"], "support_state": "supported", "source_hashes": {"dsl_catalogue": "f2132e96ae6c7a4e"}, "confidence": 1.0, "evidence": ["Subsequently, the GEO2R (10) tool and limma package (11) available through Bioconductor (version 3.8) of R Studio (version 3.5) were used to compare the gene expression of the CC, EC and VC groups. P<0.05 and a fold-change >2 were considered to indicate a DEG."], "order_basis": "analysis_only", "id": "assay:1"}]},"meta":{"api_version":"v1","automation_ladder_snapshot":"ba34b49490d9bfaf","automation_ladder_caveats":["Method extraction is rule-based and has no hand-judged accuracy sample. Evidence bands order textual support; method agreement intervals are null (n=0), never probabilities. Work-type validation does not validate methods.","Operation coverage describes only explicitly named methods. It does not prove a complete protocol, compatible parameters, successful compilation or re-execution. Unrecognised or ambiguous methods require review.","Data reachability is a textual accession or public-data statement. No dataset was downloaded or checked for access, completeness or licence.","Capabilities are planning states seeded from the dated equipment register. No bench ownership, completed quote or partner booking is inferred. Procurement counts are dependencies, not guaranteed replications or financial returns.","Tier and blocker counts are deterministic assessments of this corpus, not measured agreement. R3 is reserved for procurement; unresolved methods and data require human work (R4). The most restrictive axis wins, with capability, method, data as tie-breaks. Resolving one blocker can leave another at the same tier."],"engine":"corpus_engine","engine_provider":"rule_based_v1+lex99e1195c7d6f","run_id":"run-20261023T122449232913","source":"esearch","source_detail":"PubMed mirror biomed_pubmed (read-only)","run_status":"complete","imported_at":"2026-11-03T20:16:52+00:00","generated_at":"2026-11-04T01:32:24+00:00","total_papers":5529,"total_assays_tracked":29,"automatable_assay_families":6,"validated":true,"caveat_count":9,"blocking_caveats":5,"caveats":[{"code":"low_evidence_dominates","basis":["4,152 of 5,529 classifications (75.1%) matched no cue evidence and sit at the 0.05 floor.","34 of 230 data_only calls (14.8%) are in that group."],"claim":"Work type and confidence bands","gloss":"Most records were classified from their title and framing alone, with assay-cue coverage at zero.","detail":"Most classifications in this run rest on no matched evidence at all. At the evidence floor the work type comes from title framing and a fixed prior, not from anything in the paper, so the published work-type split should be read as a rough triage signal rather than a measured distribution. The impact is bounded but not removed: since 2026-10-23 the engine excludes floor-confidence records from the shortlist entirely and publishes them separately as held out, so the recommendation is unaffected even though the census is.","status":"unverified","severity":"high"},{"code":"runtime_is_modelled","basis":["Runtime is summed from published per-assay hour figures. Timing awaits the first executed replication.","4,407 of 5,529 records (79.7%) model to 0.00 hours because no assay was matched, which the ranking then reads as \"cheapest\".","0 of 10 shortlisted records carry a 0.00-hour estimate."],"claim":"Estimated replication runtime","gloss":"The hour figures are estimates built from assay mentions; timing awaits the first executed replication.","detail":"The hour figures are a cost model derived from the bench steps implied by each matched assay family. The first executed replication will supply measured timing. Records without an assay match currently receive a zero-hour model value.","status":"unverified","severity":"high"},{"code":"signal_score_without_citations","basis":["5,529 of 5,529 records (100.0%) have no citation count from the source metadata."],"claim":"Signal score","gloss":"The signal score uses publication-type weight because the mirror supplied zero citation counts.","detail":"The source supplied no citation counts for any record in this run, so the signal score is publication-type weight only. The citation term of the ranking is inert here, and the shortlist is ordered by publication type alone.","status":"unverified","severity":"high"},{"code":"abstract_absent","basis":["1,667 of 5,529 records (30.2%) carry no abstract at all."],"claim":"Evidence base for classification","gloss":"Some records contain a title and publication type only, defining the available classification evidence.","detail":"Where the mirror contains a title and publication types only, those fields define the classifier evidence. A methods section is required for fuller automated and human review.","status":"unverified","severity":"medium"},{"code":"classifier_agreement_measured","basis":["Published two-way decision agreement 77.7% (310 of 399 decidable records) from a stratified hand-check of 438 real records.","Three-way diagnostic agreement 73.9% (288 of 390 decidable records).","data_only agreement 75.2% (100 of 133 decidable).","48 record(s) could not be decided from title and abstract and were excluded from the denominator.","56 analysis-only records were published under another work type, so the data_only share is not an upper bound."],"claim":"Published automatable decision","gloss":"This figure has been checked against a human reading the same papers, so we know how often it is right.","detail":"The published automatable / not-automatable distribution comes from a rule-based classifier that was hand-checked against a fixed ground-truth definition. The agreement rates below are measured, not estimated. The three-way work type remains a diagnostic and is reported separately.","status":"measured","severity":"high"},{"code":"llm_comparison_not_measured","basis":["rule_based_v1+lex99e1195c7d6f produced 5,529 of 5,529 classifications.","Measured on 438 labelled records; these are RULE-BASED figures, not model results."],"claim":"Rule-based versus LLM agreement","gloss":"Every number here is the rule engine’s own. Model comparison begins when a working API credential is connected and measured.","detail":"The published two-way decision agreed with a human reading on 310 of 399 decidable records (77.7%). The diagnostic three-way label agreed on 288 of 390 decidable records (73.9%). Every percentage in this run belongs to the rule engine. Model comparison begins when a working API credential is connected and measured.","status":"not_measured","severity":"high"},{"code":"confidence_is_a_band","basis":["low band: 135 of 210 hand-judged records were correct, 64.3% [57.6, 70.5] (95% CI).","medium band: 80 of 104 hand-judged records were correct, 76.9% [68.0, 84.0] (95% CI).","high band: 73 of 76 hand-judged records were correct, 96.0% [89.0, 98.7] (95% CI).","A fitted calibrated probability was built, measured and withdrawn: it overstated held-out accuracy and reorders nothing."],"claim":"Confidence band and evidence score","gloss":"The confidence band carries a measured accuracy interval; 0.85 represents relative rank strength.","detail":"Confidence on this run is a BAND plus its measured accuracy interval. The number stored alongside each record is a monotone evidence score that orders records; 0.85 represents relative rank strength. A fitted probability was withdrawn after it overstated held-out accuracy. Threshold on the band.","status":"measured","severity":"medium"},{"code":"three_way_split_is_diagnostic","basis":["The corpus is published at the two-way decision: automatable or not-automatable. The three-way split (data_only / physical / mixed) is published as a diagnostic with its measured reliability attached, not as a claim, because the rule engine's `mixed` call cannot be defended.","The engine called 22 record(s) mixed; 10 matched the human judgement (45.5%, 95% CI 26.9-65.3).","The engine's `mixed` call is right on 10/22 hand-judged records (45.5%, 95% CI 26.9%-65.3%); a constant `physical` guess scores 36.4%.","The engine's `mixed` call does not reliably beat a constant `physical` guess on the hand-judged records it labels mixed.","The sign of that difference flips between two independent samples, so the three-way refinement is not demonstrably informative.","The mixed stratum contributes a disproportionate share of errors relative to its size.","At title-only depth the physical/mixed split collapses: a title says that work was done, not whether it was also analysed."],"claim":"The published decision is two-way","gloss":"The three-way split is shown for diagnosis only. The published split is two ways.","detail":"Count and filter the corpus on automatable versus not-automatable. The data_only / physical / mixed split remains an internal engine diagnostic because the mixed call has lower measured reliability.","status":"measured","severity":"medium"},{"code":"automatable_flag_unproven","basis":["6 of 29 assay families are marked automatable now: meta_analysis, machine_learning, survival_analysis, pca, molecular_docking, differential_expression.","The flag is a rule over assay family and work type; validation begins with the first executed replication.","It inherits the 75.2% data_only agreement rate, because the flag requires the record to be analysis-only."],"claim":"Automatable now","gloss":"This flag marks assay families the rules classify as data-only. The first executed replication will validate it.","detail":"This flag marks families the rules consider replicable from data alone. Its validity depends on the analysis-only classification and will be measured through an executed replication.","status":"unverified","severity":"medium"}],"confidence_policy":"band_with_measured_interval","confidence_contract":{"policy":"band_with_measured_interval","summary":"Confidence is reported as a BAND with a measured accuracy interval. The raw evidence score supplies monotone ordering. A fitted point estimate was withdrawn after it overstated held-out accuracy.","evidence_score":"A monotone evidence score in [0,1] built from cue mass, axis separation and text coverage. Use it to order records. Interpret 0.85 as relative rank strength.","confidence_band":"low | medium | high. Consumers threshold on this value.","band_accuracy":"Wilson 95% interval on the measured agreement of the hand-judged records in this band.","calibrated_confidence":"WITHDRAWN. Reintroduction requires held-out evidence demonstrating reliable estimates across every bin."},"band_accuracy":{"low":{"n":210,"low":0.576,"band":"low","high":0.7046,"agree":135,"accuracy":0.6429},"high":{"n":76,"low":0.8903,"band":"high","high":0.9865,"agree":73,"accuracy":0.9605},"medium":{"n":104,"low":0.6795,"band":"medium","high":0.8397,"agree":80,"accuracy":0.7692}},"provider":"rule_based_v1+lex99e1195c7d6f","lexicon_id":"99e1195c7d6f","contract_published_at":"2026-10-23T12:25:29.022232+00:00","confidence_is_band":true,"confidence_is_probability":false,"decision_taxonomy":"two_way","decidable_fraction_two_way":0.8854,"decidable_fraction_two_way_low":0.8565,"decidable_fraction_two_way_high":0.9143,"decidable_fraction_three_way":0.8586,"decidable_fraction_three_way_low":0.8287,"decidable_fraction_three_way_high":0.8884,"decidable_population":5529,"validation_sample_size":438,"three_way_cost_fraction":0.0268,"three_way_cost_records":148,"decision_counts":{"automatable":230,"not_automatable":5299},"decision_split":{"automatable":{"count":230,"share":0.04159884246699222},"not_automatable":{"count":5299,"share":0.9584011575330078}},"diagnostic_work_type_counts":{"mixed":24,"physical":5275,"data_only":230}}}