https://w3id.org/np/RAVL8hRFURhqGZ1WFRnZs8jpl44TPfrDgWKnizDqspo4I
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np:hasAssertion sub:assertion;
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sub:assertion {
<https://w3id.org/delphi/resource/assessment/levin-2022-grn-learning-17--claim-test>
a <https://w3id.org/delphi/ontology/Assessment>;
dc:description "Sensitization uses the authors' rule on NewDrugResSensitBreak.mat: at least two nonzero stimulus codes, all equal. The biological fraction is the number of models with at least one such pair, divided by 35. The percentage matches column 2 of their deposited percentage matrix. No random-circuit scores are deposited and none were generated. The pre-registered refute rule requires at least 20 random models, so a biological fraction alone does not close the verdict.";
<http://www.w3.org/2000/01/rdf-schema#comment> "Measured: 0.6571428571428571 fraction of 35 models with at least one sensitizing pair (n = 35). Interpretation: Sensitization here is an ODE simulation outcome, not a measured cellular sensitization. data_kind will be computational.";
<http://www.w3.org/2000/01/rdf-schema#label> "Claim test of levin-2022-grn-learning-17: inconclusive, confidence 0.4";
<http://www.w3.org/2000/01/rdf-schema#seeAlso> <https://github.com/fractastical/delphisci/blob/bf2af6ee0a84e23ffa6414ad7a0a50a8c276506e/test-data/claim-tests/levin-papers/levin-2022-grn-learning-17/result.json>;
prov:wasAttributedTo <https://w3id.org/delphi/resource/agent/delphisci-claim-tester-grok-4-7>;
<https://w3id.org/delphi/ontology/admissibleDatasets> "The published ODE models fetched by BioModels id, and random circuits matched in size and scored with the same sensitization rule. A typed copy of the paper's 27 of 35 is not admissible.";
<https://w3id.org/delphi/ontology/assessmentType> "claim-test/0.1.0";
<https://w3id.org/delphi/ontology/dataKind> "computational";
<https://w3id.org/delphi/ontology/disconfirmingObservation> "The biological fraction is below 27/35, or the median random pairing fraction is 10% or higher.";
<https://w3id.org/delphi/ontology/evidenceAgainst> "23 of 35 models have at least one sensitizing pair. That fraction, 0.657, is below the pre-registered biological bar of 27/35.",
"The ODEs were not re-integrated.", "Zero random circuits were scored. The pre-registered rule refutes only when at least 20 random models were tested, so the verdict is inconclusive rather than a refutation.";
<https://w3id.org/delphi/ontology/expectedObservation> "At least 27/35 of the biological models have a sensitizing stimulus-response pair, and the median random model has sensitizing pairs in under 10% of pairings.";
<https://w3id.org/delphi/ontology/failCriterion> "Refutes if the biological fraction is < 27/35, or if the random median pair-fraction is >= 0.10, provided at least 10 biological models and at least 20 random models were tested. Mixed is not used for a miss of either bar: either miss refutes the conjunction. Inconclusive with reason underpowered if fewer than 10 biological models or fewer than 20 random models are tested. Inconclusive with reason data-unavailable if the biological models cannot be fetched.";
<https://w3id.org/delphi/ontology/hasConfidence> "0.4"^^xsd:double;
<https://w3id.org/delphi/ontology/hasEvidence> <https://w3id.org/delphi/resource/evidence/levin-2022-grn-learning-17--claim-test--dataset-1>,
<https://w3id.org/delphi/resource/evidence/levin-2022-grn-learning-17--claim-test--dataset-2>;
<https://w3id.org/delphi/ontology/hasVerdict> "inconclusive";
<https://w3id.org/delphi/ontology/hypothesis> "Sensitization, a progressive 1.5-fold increase in response, occurs in at least 27 of 35 biological pathway models and in under 10% of stimulus-response pairings in random models.";
<https://w3id.org/delphi/ontology/inferenceMethod> "Score each stimulus-response pair for a progressive 1.5-fold increase. Biological model fraction against 27/35. Median over random models of the pair fraction against 0.10. Both are required for supports.";
<https://w3id.org/delphi/ontology/passCriterion> "Pre-registered before any model file or simulation output is downloaded. The pass bars are the fractions stated in the claim. Sensitization of a pair is a progressive increase of response amplitude to at least 1.5 times the first response across repeated stimulations. A biological model counts as sensitizing if at least one stimulus-response pair sensitizes. Supports only if (biological models that sensitize) / (biological models tested) >= 27/35 and, across random models, the median of (sensitizing pairs / pairs tested) is < 0.10. The authors' GRN_ODE sensitization rule replaces the 1.5-fold rule only if that code draws the label; the fractions do not change.";
<https://w3id.org/delphi/ontology/preregistered> "false"^^xsd:boolean .
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<https://w3id.org/delphi/resource/evidence/levin-2022-grn-learning-17--claim-test--dataset-1>
a <https://w3id.org/delphi/ontology/EvidenceItem>;
dc:description "authors' MATLAB sources and deposited simulation-count matrices; the ODE right-hand sides are not in this repository";
dc:license "";
<http://www.w3.org/2000/01/rdf-schema#label> "Dataset: GRN_ODE, code and deposited outputs for Biswas, Clawson and Levin 2022";
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<https://raw.githubusercontent.com/wesleypclawson/GRN_ODE/aaa60c37a49d41b5fa15e09b9a81d098674694fc/DrugResisSensit.mat>,
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<https://raw.githubusercontent.com/wesleypclawson/GRN_ODE/aaa60c37a49d41b5fa15e09b9a81d098674694fc/ODE_New.mat>,
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prov:wasDerivedFrom <https://github.com/wesleypclawson/GRN_ODE>;
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<https://w3id.org/delphi/resource/evidence/levin-2022-grn-learning-17--claim-test--dataset-2>
a <https://w3id.org/delphi/ontology/EvidenceItem>;
dc:description "BioModels ids in table order; each id was then resolved on the BioModels search API";
dc:license "cc by";
<http://www.w3.org/2000/01/rdf-schema#label> "Dataset: Table S1, list of 35 BioModels ODE networks";
prov:atLocation <https://www.ebi.ac.uk/europepmc/webservices/rest/PMC9820177/supplementaryFiles>;
prov:wasDerivedFrom <https://www.mdpi.com/article/10.3390/ijms24010285/s1>;
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sub:provenance {
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prov:actedOnBehalfOf <https://orcid.org/0009-0007-4948-9192>;
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dc:identifier "grok-4.7" .
sub:assertion prov:wasAttributedTo <https://w3id.org/delphi/resource/agent/delphisci-claim-tester-grok-4-7>;
prov:wasDerivedFrom <https://github.com/fractastical/delphisci/blob/bf2af6ee0a84e23ffa6414ad7a0a50a8c276506e/test-data/claim-tests/levin-papers/levin-2022-grn-learning-17/result.json>;
prov:wasGeneratedBy sub:test .
sub:plan prov:hadPlan <https://github.com/fractastical/delphisci/blob/bf2af6ee0a84e23ffa6414ad7a0a50a8c276506e/test-data/claim-tests/README.md> .
sub:test a prov:Activity;
prov:qualifiedAssociation sub:plan;
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sub:pubinfo {
this: dc:created "2026-11-08T16:24:31.876Z"^^xsd:dateTime;
dc:creator <https://orcid.org/0009-0007-4948-9192>;
dc:license <https://creativecommons.org/licenses/by/4.0/>;
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npx:introduces <https://w3id.org/delphi/resource/assessment/levin-2022-grn-learning-17--claim-test>;
<http://www.w3.org/2000/01/rdf-schema#label> "Claim test of levin-2022-grn-learning-17: inconclusive, confidence 0.4";
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