https://w3id.org/np/RAtqyFs1pp3KBic-lK2XPwggMY3xPgPNZHkjJUaqu9GUQ/Head https://w3id.org/np/RAtqyFs1pp3KBic-lK2XPwggMY3xPgPNZHkjJUaqu9GUQ http://www.nanopub.org/nschema#hasAssertion https://w3id.org/np/RAtqyFs1pp3KBic-lK2XPwggMY3xPgPNZHkjJUaqu9GUQ/assertion https://w3id.org/np/RAtqyFs1pp3KBic-lK2XPwggMY3xPgPNZHkjJUaqu9GUQ http://www.nanopub.org/nschema#hasProvenance https://w3id.org/np/RAtqyFs1pp3KBic-lK2XPwggMY3xPgPNZHkjJUaqu9GUQ/provenance https://w3id.org/np/RAtqyFs1pp3KBic-lK2XPwggMY3xPgPNZHkjJUaqu9GUQ http://www.nanopub.org/nschema#hasPublicationInfo https://w3id.org/np/RAtqyFs1pp3KBic-lK2XPwggMY3xPgPNZHkjJUaqu9GUQ/pubinfo https://w3id.org/np/RAtqyFs1pp3KBic-lK2XPwggMY3xPgPNZHkjJUaqu9GUQ http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://www.nanopub.org/nschema#Nanopublication https://w3id.org/np/RAtqyFs1pp3KBic-lK2XPwggMY3xPgPNZHkjJUaqu9GUQ/assertion https://w3id.org/delphi/resource/assessment/levin-2022-grn-learning-05--claim-test http://purl.org/dc/terms/description A model has memory when any of memory types 1 through 7 in ODE_New.mat is positive. Node count is Bin_numSp. The pre-registered bar, for 35 integrated models, is exactly four models without memory and at least three of those four with fewer than four nodes. The ODEs were not re-integrated. https://w3id.org/delphi/resource/assessment/levin-2022-grn-learning-05--claim-test http://www.w3.org/1999/02/22-rdf-syntax-ns#type https://w3id.org/delphi/ontology/Assessment https://w3id.org/delphi/resource/assessment/levin-2022-grn-learning-05--claim-test http://www.w3.org/2000/01/rdf-schema#comment Measured: 4 models with no memory type from 1 through 7, out of 35 (n = 35). Interpretation: Presence of memory is a property of the ODE simulations. It does not show that small biochemical networks in cells lack memory. data_kind will be computational. https://w3id.org/delphi/resource/assessment/levin-2022-grn-learning-05--claim-test http://www.w3.org/2000/01/rdf-schema#label Claim test of levin-2022-grn-learning-05: supports, confidence 0.55 https://w3id.org/delphi/resource/assessment/levin-2022-grn-learning-05--claim-test 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-05/result.json https://w3id.org/delphi/resource/assessment/levin-2022-grn-learning-05--claim-test http://www.w3.org/ns/prov#wasAttributedTo https://w3id.org/delphi/resource/agent/delphisci-claim-tester-grok-4-7 https://w3id.org/delphi/resource/assessment/levin-2022-grn-learning-05--claim-test https://w3id.org/delphi/ontology/admissibleDatasets The published ODE models named by the authors' repository or a BioModels fetch, with node counts taken from the fetched model rather than from the paper's table. https://w3id.org/delphi/resource/assessment/levin-2022-grn-learning-05--claim-test https://w3id.org/delphi/ontology/assessmentType claim-test/0.1.0 https://w3id.org/delphi/resource/assessment/levin-2022-grn-learning-05--claim-test https://w3id.org/delphi/ontology/dataKind computational https://w3id.org/delphi/resource/assessment/levin-2022-grn-learning-05--claim-test https://w3id.org/delphi/ontology/disconfirmingObservation No model lacks memory, or more than seven of 35 lack memory, or none of the memory-less models is among the models with fewer than four nodes. https://w3id.org/delphi/resource/assessment/levin-2022-grn-learning-05--claim-test https://w3id.org/delphi/ontology/evidenceAgainst Exactly four models have no memory type from 1 through 7. Three of them have fewer than four nodes: BIOMD0000000003 (3), BIOMD0000000024 (2) and BIOMD0000000036 (2). BIOMD0000000483 has 8 nodes and is the fourth. https://w3id.org/delphi/resource/assessment/levin-2022-grn-learning-05--claim-test https://w3id.org/delphi/ontology/evidenceAgainst The ODEs were not re-integrated. Node counts are the authors' Bin_numSp, aligned to Table S1 by order. https://w3id.org/delphi/resource/assessment/levin-2022-grn-learning-05--claim-test https://w3id.org/delphi/ontology/expectedObservation Exactly four of 35 integrated models have no memory kind, and at least three of those four have fewer than four nodes. https://w3id.org/delphi/resource/assessment/levin-2022-grn-learning-05--claim-test https://w3id.org/delphi/ontology/failCriterion Refutes if 35 models integrate and the number without memory is 0 or greater than 7, or if at least 4 models have fewer than 4 nodes and none of the memory-less models is among them. Mixed if models integrate but the exception count or the size pattern misses the pass bar without meeting the refute bar. Inconclusive with reason underpowered if fewer than 30 models integrate. Inconclusive with reason data-unavailable if the models cannot be fetched. https://w3id.org/delphi/resource/assessment/levin-2022-grn-learning-05--claim-test https://w3id.org/delphi/ontology/hasConfidence 0.55 https://w3id.org/delphi/resource/assessment/levin-2022-grn-learning-05--claim-test https://w3id.org/delphi/ontology/hasEvidence https://w3id.org/delphi/resource/evidence/levin-2022-grn-learning-05--claim-test--dataset-1 https://w3id.org/delphi/resource/assessment/levin-2022-grn-learning-05--claim-test https://w3id.org/delphi/ontology/hasEvidence https://w3id.org/delphi/resource/evidence/levin-2022-grn-learning-05--claim-test--dataset-2 https://w3id.org/delphi/resource/assessment/levin-2022-grn-learning-05--claim-test https://w3id.org/delphi/ontology/hasVerdict supports https://w3id.org/delphi/resource/assessment/levin-2022-grn-learning-05--claim-test https://w3id.org/delphi/ontology/hypothesis Memory is absent in four of the 35 pathway models, and at least three of those four have fewer than four nodes. https://w3id.org/delphi/resource/assessment/levin-2022-grn-learning-05--claim-test https://w3id.org/delphi/ontology/inferenceMethod Count models with no positive memory kind. Compare that count to 4 (or round(4*n/35) if n is not 35). Among the exceptions, count how many have fewer than 4 nodes and compare to 3. https://w3id.org/delphi/resource/assessment/levin-2022-grn-learning-05--claim-test https://w3id.org/delphi/ontology/passCriterion Pre-registered before any model file or simulation output is downloaded. The pass bar is the count stated in the claim: memory absent in 4 models out of 35, with at least 3 of those 4 having fewer than 4 nodes. A model has memory if it shows at least one of the five kinds defined in the levin-2022-grn-learning-01 preregistration. Node count is the number of state variables simulated. Supports, when 35 models integrate, if the number without memory is exactly 4 and at least 3 of them have fewer than 4 nodes. 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