https://w3id.org/np/RA1Vi-8Nc5KcwLIG868hoVD2Fc-xI669FdZo42HEc9Ogs/Head https://w3id.org/np/RA1Vi-8Nc5KcwLIG868hoVD2Fc-xI669FdZo42HEc9Ogs http://www.nanopub.org/nschema#hasAssertion https://w3id.org/np/RA1Vi-8Nc5KcwLIG868hoVD2Fc-xI669FdZo42HEc9Ogs/assertion https://w3id.org/np/RA1Vi-8Nc5KcwLIG868hoVD2Fc-xI669FdZo42HEc9Ogs http://www.nanopub.org/nschema#hasProvenance https://w3id.org/np/RA1Vi-8Nc5KcwLIG868hoVD2Fc-xI669FdZo42HEc9Ogs/provenance https://w3id.org/np/RA1Vi-8Nc5KcwLIG868hoVD2Fc-xI669FdZo42HEc9Ogs http://www.nanopub.org/nschema#hasPublicationInfo https://w3id.org/np/RA1Vi-8Nc5KcwLIG868hoVD2Fc-xI669FdZo42HEc9Ogs/pubinfo https://w3id.org/np/RA1Vi-8Nc5KcwLIG868hoVD2Fc-xI669FdZo42HEc9Ogs http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://www.nanopub.org/nschema#Nanopublication https://w3id.org/np/RA1Vi-8Nc5KcwLIG868hoVD2Fc-xI669FdZo42HEc9Ogs/assertion https://w3id.org/delphi/resource/assessment/thompson1917-ch04-07--claim-test http://purl.org/dc/terms/description Downloaded the Zenodo 5551168 zip and checked its SHA-256. Each CSV is one cell. The spindle axis is the mean sign-aligned unit vector between sister kinetochores; the equator is the plane through that frame's centroid. Anaphase onset is the pre-registered rise in the axial standard deviation, and each cell's early and late windows are the first and last 20% of pre-anaphase frames. The verdict uses the 95 DMSO control cells: a one-sided Wilcoxon test of the change in mean absolute axial distance, a majority with a negative change, and a late cloud whose median radius exceeds its median absolute axial distance. Nocodazole and ZM arms are scored the same way and do not decide the verdict. No column records magnetic susceptibility. https://w3id.org/delphi/resource/assessment/thompson1917-ch04-07--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/thompson1917-ch04-07--claim-test http://www.w3.org/2000/01/rdf-schema#comment Measured: -0.05102386815182469 median across control cells of (late mean |axial distance| minus early mean |axial distance|), KiT coordinate units (n = 95, one-sided Wilcoxon p (late closer to equator) = 0.000332307282451685). Interpretation: Thompson's chromatin that 'collects in a peripheral circle on the equatorial plane' is read as kinetochore positions (Ndc80 marks the kinetochore, a point on the chromosome) moving from large |z| toward the spindle midplane and, once there, lying off the spindle axis. The nucleus being drawn in between the poles is the same axial movement seen at kinetochores after the nucleus has broken down; the tracks start at prometaphase, so intact-nucleus motion is outside the file. 'Behaves like a diamagnetic body' would require a magnetic susceptibility or an applied-field response. That clause is untested unless the archive itself contains such a measurement. Human RPE1 cells are one cell line inside the claim's scope of dividing cells, not a sample of cells in general. Drug conditions are contrasts, not a test of diamagnetism. https://w3id.org/delphi/resource/assessment/thompson1917-ch04-07--claim-test http://www.w3.org/2000/01/rdf-schema#label Claim test of thompson1917-ch04-07: supports, confidence 0.35 https://w3id.org/delphi/resource/assessment/thompson1917-ch04-07--claim-test http://www.w3.org/2000/01/rdf-schema#seeAlso https://github.com/fractastical/delphisci/blob/bf2af6ee0a84e23ffa6414ad7a0a50a8c276506e/test-data/claim-tests/thompson-growth-form/thompson1917-ch04-07/result.json https://w3id.org/delphi/resource/assessment/thompson1917-ch04-07--claim-test http://www.w3.org/ns/prov#wasAttributedTo https://w3id.org/delphi/resource/agent/delphisci-claim-tester-grok-4-7-high-fast https://w3id.org/delphi/resource/assessment/thompson1917-ch04-07--claim-test https://w3id.org/delphi/ontology/admissibleDatasets 3D positions of kinetochores or chromatin over time in dividing cells, with enough frames to separate an early bipolar configuration from a later one, and either pole coordinates or a kinetochore cloud from which a bipolar axis can be defined. Public and licensed for reuse. A magnetic-susceptibility measurement would be admissible for the mechanism clause and is not required for the geometric clause. https://w3id.org/delphi/resource/assessment/thompson1917-ch04-07--claim-test https://w3id.org/delphi/ontology/assessmentType claim-test/0.1.0 https://w3id.org/delphi/resource/assessment/thompson1917-ch04-07--claim-test https://w3id.org/delphi/ontology/dataKind biological https://w3id.org/delphi/resource/assessment/thompson1917-ch04-07--claim-test https://w3id.org/delphi/ontology/disconfirmingObservation Kinetochores move away from the midplane toward the poles, or they remain in polar clusters through the late window. https://w3id.org/delphi/resource/assessment/thompson1917-ch04-07--claim-test https://w3id.org/delphi/ontology/evidenceAgainst No control movie starts at the poles. Early-window mean |z| ranges from 0.5892733964832744 to 1.0283030145693008, while the median of late-window median radii is 3.3191696156345114. The tracks open on an equatorial plate. https://w3id.org/delphi/resource/assessment/thompson1917-ch04-07--claim-test https://w3id.org/delphi/ontology/evidenceAgainst Nocodazole cells, which do not decide the verdict, have median delta 0.014707760502279288 (fraction closer 0.4491525423728814, Wilcoxon less p 0.3529732436740217, n 118). ZM-only cells have median delta 0.00790845316987554 (n 22). This contrast is not a magnetic measurement. https://w3id.org/delphi/resource/assessment/thompson1917-ch04-07--claim-test https://w3id.org/delphi/ontology/evidenceAgainst The axial shift is small. In 95 control cells the median change in mean |z| is -0.05102386815182469 (mean -0.052862710318943684); 56 cells move closer to the midplane and 39 move farther (one-sided Wilcoxon p 0.000332307282451685). Median mean |z| is 0.7755638144141701 early and 0.7331808084305548 late. https://w3id.org/delphi/resource/assessment/thompson1917-ch04-07--claim-test https://w3id.org/delphi/ontology/evidenceAgainst The axis is inferred from sister kinetochores, not from recorded poles. Scope is one human cell line (RPE1), and the movies are cells filmed through mitosis. https://w3id.org/delphi/resource/assessment/thompson1917-ch04-07--claim-test https://w3id.org/delphi/ontology/evidenceAgainst The diamagnetic-susceptibility clause is untested. The columns are positions, amplitudes, frame, time and sister ids. It is not scored as refuted. https://w3id.org/delphi/resource/assessment/thompson1917-ch04-07--claim-test https://w3id.org/delphi/ontology/evidenceAgainst The late cloud is wider than it is thick in every control cell (fraction 1.0) and also in the nocodazole arm (fraction 1.0, n 118). That comparison does not isolate a ring that forms only in controls. https://w3id.org/delphi/resource/assessment/thompson1917-ch04-07--claim-test https://w3id.org/delphi/ontology/expectedObservation In control cells, kinetochores are closer to the spindle midplane late in prometaphase or metaphase than at the start of the movie, and at that later time they sit off the spindle axis in an equatorial plate or ring. https://w3id.org/delphi/resource/assessment/thompson1917-ch04-07--claim-test https://w3id.org/delphi/ontology/failCriterion Pre-registered. REFUTES if n_cells >= 10 and the Wilcoxon test of delta is significant (p < 0.05) in the positive direction (late farther from the equator). MIXED if the axial test supports but the late-window radial comparison fails in a majority of cells, or if the radial comparison holds while delta is not significantly negative. Inconclusive, reason underpowered, if fewer than 10 control cells can be measured; data-unavailable if the archive cannot be fetched; not-operationalizable if positions cannot be read or no axis can be defined. If xy pixel size is absent, the radial comparison is not-operationalizable: axial support alone then scores the geometric clause mixed. The diamagnetic-susceptibility clause is not scored. Absence of a susceptibility measurement does not refute it and does not change a geometric supports into mixed. Thresholds are not revised after the tracks are opened. https://w3id.org/delphi/resource/assessment/thompson1917-ch04-07--claim-test https://w3id.org/delphi/ontology/hasConfidence 0.35 https://w3id.org/delphi/resource/assessment/thompson1917-ch04-07--claim-test https://w3id.org/delphi/ontology/hasEvidence https://w3id.org/delphi/resource/evidence/thompson1917-ch04-07--claim-test--dataset-1 https://w3id.org/delphi/resource/assessment/thompson1917-ch04-07--claim-test https://w3id.org/delphi/ontology/hasVerdict supports https://w3id.org/delphi/resource/assessment/thompson1917-ch04-07--claim-test https://w3id.org/delphi/ontology/hypothesis In a bipolar mitotic cell, kinetochores move from positions near the spindle poles toward a ring on the equatorial plane. https://w3id.org/delphi/resource/assessment/thompson1917-ch04-07--claim-test https://w3id.org/delphi/ontology/inferenceMethod Per control cell, compare mean absolute axial distance in a pre-anaphase early window and late window with a one-sided Wilcoxon signed-rank test (p < 0.05, n >= 10), and require the late cloud to be flatter than it is thick (median radial distance greater than median absolute axial distance) in a majority of cells. Drug arms are reported and do not decide the verdict. https://w3id.org/delphi/resource/assessment/thompson1917-ch04-07--claim-test https://w3id.org/delphi/ontology/passCriterion Pre-registered geometric clause only. Use control cells (folder or file name containing DMSO, control, untreated, or WT, and not nocodazole, ZM, or Aurora). A cell counts if it has at least 20 kinetochore positions in both the early window and the late window. The spindle axis is the line through recorded poles when the file contains pole or centrosome coordinates; otherwise it is the first principal component of the kinetochore positions in each frame, oriented to be continuous with the previous frame, and the equator is the plane through the centroid perpendicular to that axis. Early window: the first 20% of frames before detected anaphase. Late window: the 20% of frames immediately before detected anaphase. Anaphase onset is the first frame at which the standard deviation of axial position has risen by at least 50% from its minimum and is still at least that high two frames later. If anaphase is not detected, the early window is the first 20% of frames and the late window is the central 20% (from 40% to 60% of the movie). For each cell, delta is the mean absolute axial distance |z| in the late window minus the mean |z| in the early window. SUPPORTS if n_cells >= 10, the one-sided Wilcoxon signed-rank test of delta against 0 has p < 0.05 in the negative direction (late closer to the equator), a majority of cells have delta < 0, and, in a majority of cells, the late-window median radial distance r from the axis exceeds the late-window median |z| (an equatorial plate or ring rather than a polar cluster). Distances are in micrometres using the file's pixel size and z step; if the file omits them, use 0.307 µm per z plane as stated in the Zenodo record and the xy pixel size only if the file states it. Nocodazole and Aurora-inhibitor movies are scored with the same statistics and do not decide the verdict. https://w3id.org/delphi/resource/assessment/thompson1917-ch04-07--claim-test https://w3id.org/delphi/ontology/preregistered false https://w3id.org/delphi/resource/claim/thompson1917-ch04-07 https://w3id.org/delphi/ontology/hasAssessment https://w3id.org/delphi/resource/assessment/thompson1917-ch04-07--claim-test https://w3id.org/delphi/resource/evidence/thompson1917-ch04-07--claim-test--dataset-1 http://purl.org/dc/terms/description 3D Ndc80-eGFP kinetochore tracks in human RPE1 cells, DMSO controls and nocodazole or Aurora-B-inhibitor arms https://w3id.org/delphi/resource/evidence/thompson1917-ch04-07--claim-test--dataset-1 http://purl.org/dc/terms/license CC BY 4.0 https://w3id.org/delphi/resource/evidence/thompson1917-ch04-07--claim-test--dataset-1 http://www.w3.org/1999/02/22-rdf-syntax-ns#type https://w3id.org/delphi/ontology/EvidenceItem https://w3id.org/delphi/resource/evidence/thompson1917-ch04-07--claim-test--dataset-1 http://www.w3.org/2000/01/rdf-schema#label Dataset: Kinetochore life histories reveal an Aurora B dependent error correction mechanism in anaphase (RPE1 tracking dataset) https://w3id.org/delphi/resource/evidence/thompson1917-ch04-07--claim-test--dataset-1 http://www.w3.org/ns/prov#atLocation https://zenodo.org/api/records/5551168/files/KinetochoreLifeHistoriesTrackingDataset.zip/content https://w3id.org/delphi/resource/evidence/thompson1917-ch04-07--claim-test--dataset-1 http://www.w3.org/ns/prov#wasDerivedFrom https://zenodo.org/records/5551168 https://w3id.org/delphi/resource/evidence/thompson1917-ch04-07--claim-test--dataset-1 https://w3id.org/delphi/ontology/hasChecksum sha256:1284b9c60665787fc1b3e97c75bbe2e91ccb986ebb093cca4ea9f48bca39dcc8 https://w3id.org/np/RA1Vi-8Nc5KcwLIG868hoVD2Fc-xI669FdZo42HEc9Ogs/provenance https://w3id.org/delphi/resource/agent/delphisci-claim-tester-grok-4-7-high-fast http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://www.w3.org/ns/prov#SoftwareAgent https://w3id.org/delphi/resource/agent/delphisci-claim-tester-grok-4-7-high-fast http://www.w3.org/2000/01/rdf-schema#label delphisci claim tester (grok-4.7-high-fast; 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