{"data":{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:27303394", "kind": "science-record", "revision": 8, "content_hash": "sha256:7c469cf164eea138c97d07150be2a67d343ac335095e2dca9809571b8936eed4", "created_at": "2026-11-01T15:40:18Z", "updated_at": "2026-11-01T22:42:42Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Identification of Quantitative Proteomic Differences between Mycobacterium tuberculosis Lineages with Altered Virulence.", "doi": "10.3389/fmicb.2016.00813", "pmid": "27303394", "authors": ["Julian S Peters", "Bridget Calder", "Giulia Gonnelli", "Sven Degroeve", "Elinambinina Rajaonarifara", "Nicola Mulder", "Nelson C Soares", "Lennart Martens", "Jonathan M Blackburn"], "journal": "Frontiers in microbiology", "year": 2016, "abstract": "Evidence currently suggests that as a species Mycobacterium tuberculosis exhibits very little genomic sequence diversity. Despite limited genetic variability, members of the M. tuberculosis complex (MTBC) have been shown to exhibit vast discrepancies in phenotypic presentation in terms of virulence, elicited immune response and transmissibility. Here, we used qualitative and quantitative mass spectrometry tools to investigate the proteomes of seven clinically-relevant mycobacterial strains-four M. tuberculosis strains, M. bovis, M. bovis BCG, and M. avium-that show varying degrees of pathogenicity and virulence, in an effort to rationalize the observed phenotypic differences. Following protein preparation, liquid chromatography mass spectrometry (LC MS/MS) and data capture were carried out using an LTQ Orbitrap Velos. Data analysis was carried out using a novel bioinformatics strategy, which yielded high protein coverage and was based on high confidence peptides. Through this approach, we directly identified a total of 3788 unique M. tuberculosis proteins out of a theoretical proteome of 4023 proteins and identified an average of 3290 unique proteins for each of the MTBC organisms (representing 82% of the theoretical proteomes), as well as 4250 unique M. avium proteins (80% of the theoretical proteome). Data analysis showed that all major classes of proteins are represented in every strain, but that there are significant quantitative differences between strains. Targeted selected reaction monitoring (SRM) assays were used to quantify the observed differential expression of a subset of 23 proteins identified by comparison to gene expression data as being of particular relevance to virulence. This analysis revealed differences in relative protein abundance between strains for proteins which may promote bacterial fitness in the more virulent W. Beijing strain. These differences may contribute to this strain's capacity for surviving within the host and resisting treatment, which has contributed to its rapid spread. Through this approach, we have begun to describe the proteomic portrait of a successful mycobacterial pathogen. Data are available via ProteomeXchange with identifier PXD004165.", "claims": [{"id": "claim-method", "statement": "An ANOVA test was used to determine if there was a significant difference in the expression of each of the peptides representing each protein.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:27303394", "locator": "sections[17] \"Protein expression profiling\" paragraph 7", "quote": "An ANOVA test was used to determine if there was a significant difference in the expression of each of the peptides representing each protein."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Data are available via ProteomeXchange with identifier PXD004165.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:27303394", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Data are available via ProteomeXchange with identifier PXD004165."}], "state": "complete"}, {"id": "claim-target-result", "statement": "Data analysis showed that all major classes of proteins are represented in every strain, but that there are significant quantitative differences between strains.", "kind": "quantitative", "target": {"value": 5.0, "unit": "per cent", "tolerance": null, "source": "Decoy databases were used for FDR analysis and a cut-off was set at 5% for protein identifications."}, "evidence": [{"asset": "source:pmid:27303394", "locator": "sections[14] \"Results\" paragraph 4", "quote": "At the core of our pipeline is the semi-supervised learning algorithm implemented in Percolator (Brosch et al., 2009) that has been shown to obtain high identification sensitivity."}, {"asset": "source:pmid:27303394", "locator": "sections[13] \"Protein inference\" paragraph 2", "quote": "Decoy databases were used for FDR analysis and a cut-off was set at 5% for protein identifications."}, {"asset": "source:pmid:27303394", "locator": "sections[15] \"Data alignment for downstream comparison\" paragraph 2", "quote": "To achieve this, the total non-redundant IDs from each strain obtained by searching against its individual Ensembl fasta file were then mapped back to the Ensembl H37Rv protein IDs. These were all in turn mapped to UniProt accession numbers and Tuberculist “Rv” loci numbers to facilitate downstream analysis with tools such as GO analysis and pathway mapping."}, {"asset": "source:pmid:27303394", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Data analysis showed that all major classes of proteins are represented in every strain, but that there are significant quantitative differences between strains."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "Data analysis showed that all major classes of proteins are represented in every strain, but that there are significant quantitative differences between strains.", "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:27303394"], "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:PXD004165"], "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:PXD004165"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:27303394", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.3389/fmicb.2016.00813", "sha256": 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assessed (www.tbdb.org).", "rows": [["TBDB Experiment", "Over-expressed", "Under-expressed"], ["Acid media", "58", "38"], ["Macrophage", "18", "53"], ["Hypoxia", "59", "49"], ["NO treatment", "78", "32"], ["Starvation", "51", "26"], ["Persistence", "23", "43"], ["Antibiotics", "40", "54"]], "row_count": 8, "column_count": 3, "numeric_cells": 14, "header_rows": 1, "locator": "section[17]/table-wrap[1]#T2"}}, {"id": "asset:table:pmid:27303394:3", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:6fd008ff6694004bca33d8c6cfd6be2eaf6d2d95b21d7d9b1289aaea20318e80", "bytes": 2962, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[17]/table-wrap[2]#T3", "version": null, "note": "The 23 mycobacterial proteins identified in discovery proteomic experiments which were subsequently selected for quantitative targeted proteomic analysis.", "structure": {"pmcid": "PMC4885829", "section_index": 17, "section_title": "Protein expression profiling", "row_count": 24, "column_count": 3}, "table": {"label": "Table 3", "caption": "The 23 mycobacterial proteins identified in discovery proteomic experiments which were subsequently selected for quantitative targeted proteomic analysis.", "rows": [["Rv locus", "Function and prediction from gene expression data", "p-value"], ["Rv0301", "VapC2; toxin; possible mRNAse; impaired growth when expressed | macrophage infection models", "6,75E-07"], ["Rv0899", "ArfA; outer membrane porin A; tolerance to acidic conditions, impaired growth at pH 5.5", "5,55E-08"], ["Rv0901", "ArfC; unknown function; tolerance to acidic conditions, impaired growth at pH 5.5", "6,42E-06"], ["Rv0966", "Unknown function; highly activated in the early stages of tuberculosis blood brain barrier invasion (CNS TB)", "1,96E-05"], ["Rv1002c", "Pmt; probable mannosyltransferase; conserved membrane protein growth and survival in host", "9,35E-07"], ["Rv1346", "MbtN; mycobactin biosynthesis; adaptation to intracellular environment | stress response models", "0,020716"], ["Rv1380", "PyrB; pyrimidine biosynthesis; essential for growth; high confidence drug target | drug response models", "0,039441"], ["Rv1381", "PyrC; pyrimidine biosynthesis; growth and survival in host | drug response models", "4,59E-09"], ["Rv1383", "CarA; pyrimidine biosynthesis; growth and survival in host | drug response models", "1,08E-06"], ["Rv1384", "CarB; pyrimidine biosynthesis; growth and survival in host", "4,47E-09"], ["Rv1980c", "Mpt64; Unknown function; tolerance to starvation, highly immunogenic; vaccine and drug target potential", "0,422015"], ["Rv1997", "CtpF; Metal cation-transporting ATPase; implicated in dormancy/persistance, response to hypoxia, NO", "6,10E-06"], ["Rv2108", "PPE36; unknown function; immuno-active membrane component; diagnostic and vaccine target", "0,876293"], ["Rv2126c", "PE_PGRS37; unknown function; possible virulence/adaptation", "0,988059"], ["Rv2136c", "UppP; undecaprenyl pyrophosphatase; high confidence drug target | host immune evasion and virulence models", "5,32E-12"], ["Rv2156", "MraY; peptidoglycan biosynthesis; growth and survival in host, high confidence drug target", "0,97868"], ["Rv2703", "SigA; primary sigma factor in M. tuberculosis; host immune response modulator, virulence, growth in host, high confidence drug target | host immune evasion and virulence models", "0,026023"], ["Rv3340", "MetC; methionine biosynthesis; growth and survival in host", "0,649041"], ["Rv3412", "Unknown function; hypothetical protein; essential for cholesterol metabolism, essential during infection", "3,27E-07"], ["Rv3621c", "PPE65; unknown function; possible virulence/adaptation", "0,035777"], ["Rv3709c", "Ask; asparate kinase; survival in host", "1,23E-05"], ["Rv1818", "PE-PGRS33; unknown function; modulation of host immune response, response to oxygen and starvation", "1,61E-06"], ["Rv0833", 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"expected_value": 5.0, "unit": "per cent", "tolerance": null, "state": "complete", "note": "The published estimate as the reader quoted it from the paper. No tolerance is published because the paper states none."}], "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": ["group_summary", "welch_t", "bootstrap_mean_difference", "group_comparison_anova"], "missing_operations": [], "basis": "The paper names the method it used and the corpus's method extractor maps it onto the DSL catalogue: anova."}, "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": ["PXD004165"], "resolved_accessions": ["PXD004165"], "statements": ["Data are available via ProteomeXchange with identifier PXD004165."], "basis": "The paper names PXD004165 in ProteomeXchange and the accession resolves in the repository. No dataset was downloaded and no licence was read."}}, "can_run": {"dsl_operations": ["group_summary", "welch_t", "bootstrap_mean_difference", "group_comparison_anova"], "assets": ["source:pmid:27303394", "data:geo:PXD004165", "asset:table:pmid:27303394:1", "asset:table:pmid:27303394:2", "asset:table:pmid:27303394:3"], "steps": ["run_analysis"]}, "must_build": {"dsl_operations": [], "converters": [], "readers": [], "capabilities": [], "data_gaps": ["data:geo:PXD004165"]}, "gaps": []}, "review": {"state": "partial", "machine_critique": {"kind": "extraction_review", "reader": {"model": "MiniMax-M3.1-Flash", "provider": "minimax", "provider_family": "minimax", "read_at": "2026-10-31T18:28:41Z", "independence": "same_provider"}, "evidence_check": {"method": "verbatim", "availability": "verbatim"}, "calls": 8, "usage": {"prompt_tokens": 84613, "completion_tokens": 3378, "cached_tokens": 22040}}, "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:27303394", "type": "paper", "label": "pmid:27303394"}, {"id": "source:pmid:27303394", "type": "manuscript", "label": "PMID 27303394 full text"}, {"id": "data:geo:PXD004165", "type": "dataset", "label": "GEO PXD004165"}], "activities": [{"id": "activity-reading-sci-2026-11-01", "type": "classification", "used": [{"id": "pmid:27303394", "type": "paper", "label": "pmid:27303394"}, {"id": "source:pmid:27303394", "type": "manuscript", "label": "PMID 27303394 full text"}, {"id": "data:geo:PXD004165", "type": "dataset", "label": "GEO PXD004165"}], "agent": "agent:corpus-assay-engine"}, {"id": "activity-read-27303394", "type": "extraction", "used": ["source:pmid:27303394"], "agent": "agent:minimax-reader"}, {"id": "activity-resolve-PXD004165", "type": "accession_resolution", "used": ["data:geo:PXD004165"], "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:27303394", "parent_hash": "sha256:897c0b6b57f3cc60bfad50d457fa9b8c914b7238c0ff4f8a82db205cf4872738", "fork_of": null, "generation": 7}, "gaps": ["asset:data:geo:PXD004165 licence not read", "asset:data:geo:PXD004165 not downloaded", "execution.not_run", "review.human_critique", "review.independent_reader", "review.machine_critique"], "assays": [{"role": "data_generation", "definition_id": "mass_spectrometry", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.99, "evidence": ["Identification of Quantitative Proteomic Differences between Mycobacterium tuberculos", "this approach, we have begun to describe the proteomic portrait of a successful mycobacterial patho", ". Here, we used qualitative and quantitative mass spectrometry tools to investigate the proteomes of seven", "g protein preparation, liquid chromatography mass spectrometry (LC MS/MS) and data capture were carried out"], "order_basis": "paper_text_order:0", "id": "assay:1"}, {"role": "analysis", "definition_id": "group_comparison", "definition_version": "f2132e96ae6c7a4e", "definition_digest": null, "required_operations": ["group_summary", "welch_t", "bootstrap_mean_difference", "group_comparison_anova"], "support_state": "supported", "source_hashes": {"dsl_catalogue": "f2132e96ae6c7a4e"}, "confidence": 1.0, "evidence": ["An ANOVA test was used to determine if there was a significant difference in the expression of each of the peptides representing each protein."], "order_basis": "consumes_earlier_output", "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":"2026-11-04T02:53:09+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}}}