{"data":{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:25478318", "kind": "science-record", "revision": 6, "content_hash": "sha256:12f3556dc4f8ff5533022fb19896f52cdc4195590805ca9f45efc0bdf1dd7c64", "created_at": "2026-11-01T15:40:07Z", "updated_at": "2026-11-01T21:19:55Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Development of novel filtering criteria to analyze RNA-sequencing data obtained from the murine ocular lens during embryogenesis.", "doi": "10.1016/j.gdata.2014.10.015", "pmid": "25478318", "authors": ["Abby L Manthey", "Anne M Terrell", "Salil A Lachke", "Shawn W Polson", "Melinda K Duncan"], "journal": "Genomics data", "year": 2014, "abstract": "Next-generation sequencing of the transcriptome (RNA-Seq) is a powerful method that allows for the quantitative determination of absolute gene expression, and can be used to investigate how these levels change in response to an experimental manipulation or disease condition. The sensitivity of this method allows one to analyze transcript levels of all expressed genes, including low abundance transcripts that encode important regulatory molecules, providing valuable insights into the global effects of experimental manipulations. However, this increased sensitivity can also make it challenging to ascertain which expression changes are biologically significant. Here, we describe a novel set of filtering criteria - based on biological insights and computational approaches - that were applied to prioritize genes for further study from an extensive number of differentially expressed transcripts in lenses lacking Smad interacting protein 1 (Sip1) obtained via RNA-Seq by Manthey and colleagues in Mechanisms of Development (Manthey et al., 2014). Notably, this workflow allowed an original list of over 7,100 statistically significant differentially expressed genes (DEGs) to be winnowed down to 190 DEGs that likely play a biologically significant role in Sip1 function during lens development. Focusing on genes whose expression was upregulated or downregulated in a manner opposite to what normally occurs during lens development, we identified 78 genes that appear to be strongly dependent on Sip1 function. From these data (GEO accession number GSE49949), it appears that Sip1 regulates multiple genes in the lens that are generally distinct from those regulated by Sip1 in other cellular contexts, including genes whose expression is prominent in the early head ectoderm, from which the lens differentiates. Further, the analysis criteria outlined here represent a filtering scheme that can be used to prioritize genes in future RNA-Seq investigations performed at this stage of ocular lens development.", "claims": [{"id": "claim-method", "statement": "Differentially expressed genes (DEGs) were identified by calculating the variance from a beta binomial distribution using the method of Baggerly et al. [8] against quantile normalized observed counts [reviewed in [9]] producing per gene p-values that were false discovery rate (FDR) corrected for multiple comparison [10].", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:25478318", "locator": "sections[7] \"Gene mapping and normalization\" paragraph 3", "quote": "Differentially expressed genes (DEGs) were identified by calculating the variance from a beta binomial distribution using the method of Baggerly et al. 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[8] against quantile normalized observed counts [reviewed in [9]] producing per gene p-values that were false discovery rate (FDR) corrected for multiple comparison [10]."}, {"asset": "source:pmid:25478318", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "From these data (GEO accession number GSE49949), it appears that Sip1 regulates multiple genes in the lens that are generally distinct from those regulated by Sip1 in other cellular contexts, including genes whose expression is prominent in the early head ectoderm, from which the lens differentiates."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "A filtering workflow reduced 7,108 statistically significant differentially expressed genes to 190 biologically relevant genes, of which 78 appeared strongly dependent on Sip1 function; differential expression was assessed using a beta-binomial variance model, and the source RNA-Seq data are available through GEO accession GSE49949.", "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:25478318"], "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. 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"Citation"], ["Regulatory genes"], ["Bin3", "Bridging integrator 3", "2.6", "[21]"], ["Cdh1", "E-cadherin", "35.0", "[22]"], ["Dnase2B", "Deoxyribonuclease II beta", "16.9", "[23]"], ["Fgfr1", "Fibroblast growth factor receptor 1", "13.4", "[24]"], ["Fgfr2", "Fibroblast growth factor receptor 2", "9.0", "[24]"], ["Fgfr3", "Fibroblast growth factor receptor 3", "41.4", "[24]"], ["Foxe3", "Forkhead box E3", "136.4", "[25]"], ["Itga3", "α3-Integrin", "9.1", "[26]"], ["Itga6", "α6-Integrin", "27.4", "[26]"], ["Itgav", "αV-Integrin", "8.9", "[27]"], ["Itgb1", "β1-Integrin", "74.6", "[28]"], ["Jag1", "Jagged 1", "66.2", "[29]"], ["Loxl1", "Lysyl oxidase-like 1", "24.3", "[30]"], ["MAF", "Avian musculoaponeurotic fibrosarcoma AS42 oncogene homolog (c-Maf)", "152.7", "[31]"], ["NHS", "Nance –Horan Syndrome", "13.3", "[32]"], ["Notch2", "Notch gene homolog 2", "4.1", "[33]"], ["Notch 1", "Notch gene homolog 1", "2.5", "[34]"], ["Pax6", "Paired box gene 6", "11.2", "[35]"], ["Prox1", "Prospero-related homeobox 1", "97.6", "[36]"], ["Six3", "Sine oculis-related homeobox 3 homolog", "13.8", "[37]"], ["Tdrd7", "Tudor domain containing 7", "362", "[38]"], ["Txn1", "Thioredoxin 1", "66.2", "[39]"], ["Zeb1", "Zinc finger E-box binding homeobox 1 (δEF1)", "3.8", "[19]"], ["Zeb2", "Zinc finger E-box binding homeobox 2 (Sip1)", "5.8", "[1]"], [""], ["Structural genes"], ["Cryba1", "βA3/A1 crystallin", "23,643.5", "[40]"], ["Crygf", "γF-crystallin", "14,682.3", "[41]"], ["Mip", "Major intrinsic protein of the eye lens fiber (Aquaporin 0)", "3621.6", "[42]"]], "row_count": 31, "column_count": 4, "numeric_cells": 75, "header_rows": 1, "locator": "section[8]/table-wrap[1]#t0005"}}, {"id": "asset:table:pmid:25478318:2", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:50663ffbb0d0a0be1bbec54bf0bb702a7a8f388ed516b457e79d094de98f342d", "bytes": 2948, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[8]/table-wrap[2]#t0010", "version": null, "note": "Predicted biological function for genes differentially expressed more than 2.5 fold in E15.5 lenses obtained from mixed background (WT) mice compared to those from an inbred strain (AG).", "structure": {"pmcid": "PMC4248573", "section_index": 8, "section_title": "Filtering strategy", "row_count": 21, "column_count": 7}, "table": {"label": "Table 2", "caption": "Predicted biological function for genes differentially expressed more than 2.5 fold in E15.5 lenses obtained from mixed background (WT) mice compared to those from an inbred strain (AG).", "rows": [["Gene ID", "Gene name", "Fold changea", "FDR p-value", "WT RPKM meansb", "AG RPKM meansb", "Predicted biological functionc"], ["Snhg9", "Small nucleolar RNA host gene (non-protein coding) 9", "6.56", "2.52E− 05", "1.14", "7.79", "Long non-coding RNA"], ["Ccbe1", "Collagen and calcium binding EGF domains 1", "5.02", "0", "0.56", "2.98", "ECM remodeling/cell migration"], ["Eif3j", "Eukaryotic translation initiation factor 3, subunit J", "4.70", "0", "6.09", "19.64", "Component of the translation initiation complex"], ["Adamts4", "A disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 4", "3.69", "5.20E − 06", "1.02", "3.93", "Degradation of the cartilage proteoglycan aggrecan"], ["Lars2", "Leucyl-tRNA synthetase 2, mitochondrial", "2.90", "9.46E − 11", "150.92", "467.79", "Leucine tRNA ligase"], ["Mid1", "Midline 1", "2.71", "1.72E − 03", "6.71", "18.49", "Protein complex anchoring to microtubules"], ["Tdg", "Thymine DNA glycosylase", "2.57", "7.95E − 14", "4.19", "16.11", "DNA mismatch repair (G/T)"], ["Rpl5", "Ribosomal protein L5", "− 2.58", "3.61E− 29", "228.60", "176.68", "rRNA maturation; 60S ribosomal subunit formation"], ["Cd59a", "CD59a antigen", "− 2.65", "6.01E− 14", "5.57", "2.09", "Complement-mediated cell lysis regulation"], ["Avp", "Arginine vasopressin", "− 2.66", "1.56E− 08", "4.94", "1.71", "Water retention; blood vessel constriction"], ["Lsm7", "LSM7 homolog, U6 small nuclear RNA associated (S. cerevisiae)", "− 2.74", "8.54E− 10", "70.55", "62.08", "U6 snRNA binding during pre-mRNA splicing"], ["Ccdc117", "Coiled-coil domain containing 117", "− 2.82", "3.51E− 19", "26.31", "9.68", "Unknown"], ["Rpl22l1", "Ribosomal protein L22 like 1", "− 3.00", "6.19E− 14", "183.84", "71.56", "Protein component of the ribosome"], ["Nme2", "NME/NM23 nucleoside diphosphate kinase 2", "− 3.27", "2.28E− 10", "174.43", "132.82", "Non-ATP nucleoside triphosphate synthesis"], ["mt-Atp8", "Mitochondrially encoded ATP synthase protein 8", "− 3.28", "7.69E− 09", "2343.43", "1146.27", "Membrane anchor for ATP synthase"], ["Scg5", "Secretogranin V", "− 4.37", "3.08E− 40", "2.71", "0.61", "Molecular chaperone"], ["Gchfr", "GTP cyclohydrolase I feedback regulator", "− 4.38", "2.89E− 04", "2.96", "0.68", "Mediator of GTP cyclohydrolase inhibition"], ["Zfp580", "Zinc finger protein 580", "− 5.20", "2.22E− 03", "3.31", "1.07", "Endothelial cell proliferation and migration"], ["Xlr3b", "X-linked lymphocyte-regulated 3B", "− 5.22", "3.62E− 12", "2.59", "0.49", "Facilitator of parent-of-origin effects on cognitive function"], ["Hist1h2al", "Histone cluster 1, H2al", "–?", "0.011", "10.17", "0.71", "Core component of nucleosomes"]], "row_count": 21, "column_count": 7, "numeric_cells": 98, "header_rows": 1, "locator": "section[8]/table-wrap[2]#t0010"}}], "gaps": ["asset:data:geo:GSE32334 not downloaded", "asset:data:geo:GSE32334 licence not read", "asset:data:geo:GSE49949 not downloaded", "asset:data:geo:GSE49949 licence not read"]}, "analysis": {"state": "partial", "methods": [{"id": "method-1", "family": null, "specific": null, "label": "Beta-binomial variance method of Baggerly et al., with false discovery rate correction", "dsl_operations": [], "missing_operations": [], "expressible": null, "parameters": {}, "data_shapes": [], "evidence": {"score": 1.0, "band": "verbatim", "quote": "Differentially expressed genes (DEGs) were identified by calculating the variance from a beta binomial distribution using the method of Baggerly et al. 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No dataset was downloaded and no licence was read."}}, "can_run": {"dsl_operations": [], "assets": ["source:pmid:25478318", "data:geo:GSE32334", "asset:table:pmid:25478318:1", "asset:table:pmid:25478318:2"], "steps": ["run_analysis"]}, "must_build": {"dsl_operations": [], "converters": [], "readers": [], "capabilities": [], "data_gaps": ["data:geo:GSE32334"]}, "gaps": ["method:not_determinable"]}, "review": {"state": "partial", "machine_critique": {"kind": "extraction_review", "reader": {"model": "MiniMax-M3.1-Flash", "provider": "minimax", "provider_family": "minimax", "read_at": "2026-10-31T18:23:15Z", "independence": "same_provider"}, "evidence_check": {"method": "verbatim", "availability": "verbatim"}, "calls": 8, "usage": {"prompt_tokens": 87881, "completion_tokens": 4154, "cached_tokens": 1672}}, "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:25478318", "type": "paper", "label": "pmid:25478318"}, {"id": "source:pmid:25478318", "type": "manuscript", "label": "PMID 25478318 full text"}, {"id": "data:geo:GSE32334", "type": "dataset", "label": "GEO GSE32334"}], "activities": [{"id": "activity-reading-sci-2026-11-01", "type": "classification", "used": [{"id": "pmid:25478318", "type": "paper", "label": "pmid:25478318"}, {"id": "source:pmid:25478318", "type": "manuscript", "label": "PMID 25478318 full text"}, {"id": "data:geo:GSE32334", "type": "dataset", "label": "GEO GSE32334"}], "agent": "agent:corpus-assay-engine"}, {"id": "activity-read-25478318", "type": "extraction", "used": ["source:pmid:25478318"], "agent": "agent:minimax-reader"}, {"id": "activity-resolve-GSE32334", "type": "accession_resolution", "used": ["data:geo:GSE32334"], "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:25478318", "parent_hash": "sha256:122021a1041b9738e7194d3fb60504c9e8ccfb5da639e88bb97cc3e82f15eaf6", "fork_of": null, "generation": 5}, "gaps": ["asset:data:geo:GSE32334 licence not read", "asset:data:geo:GSE32334 not downloaded", "asset:data:geo:GSE49949 licence not read", "asset:data:geo:GSE49949 not downloaded", "execution.not_run", "method.reader_named_unmapped", "review.human_critique", "review.independent_reader", "review.machine_critique"], "assays": [{"role": "data_generation", "definition_id": "rna_seq", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.99, "evidence": ["pment of novel filtering criteria to analyze RNA-sequencing data obtained from the murine ocular lens du", "-generation sequencing of the transcriptome (RNA-Seq) is a powerful method that allows for the qu", "ad interacting protein 1 (Sip1) obtained via RNA-Seq by Manthey and colleagues in Mechanisms of D", "at can be used to prioritize genes in future RNA-Seq investigations performed at this stage of oc"], "order_basis": "paper_text_order:6", "id": "assay:1"}, {"role": "data_generation", "definition_id": "amplicon_seq", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.93, "evidence": ["Next-generation sequencing of the transcriptome (RNA-Seq) is a powerful"], "order_basis": "paper_text_order:130", "id": "assay:2"}]},"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":"2026-11-04T03:38:26+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}}}