The effect of juxtaposition angle on knot reduction in a lattice polygon model of strand passage
Bibliographic record
Abstract
A model of local strand passage in self-avoiding polygons (SAPs) on the simple cubic lattice is investigated numerically. The polygons studied, called Θ-SAPs, contain a specific strand-passage structure, called Θ, at a fixed strand-passage site. After-strand-passage knot probabilities are estimated from a Monte Carlo study of unknotted and trefoil Θ-SAPs and the estimates are used here to investigate how knot reduction depends on the local juxtaposition structure at the strand-passage site. In particular, we observe a correlation between knot reduction and the angle of the crossing at the strand-passage site; this same angle has been shown experimentally by Neuman et al (2009 Proc. Natl Acad. Sci. USA 106 6986–91) to be important in explaining topoisomerase action on DNA. The angle of the crossing is crossing sign dependent, and, from our observations, so is knot reduction; this can be used to understand experimentally observed knot-type chirality biases.
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How this classification was reachedexpand
Full frame machine prediction
Teacher imitationNot calibrated prevalence, not ground truth. Human validation pending. The Gemma side is a direct model label for every work in the frame, read from the title-only record. The Codex side is a classifier learned from the 10,348 direct Codex labels and calibrated to design-weighted sample rates; fields without enough sample support carry no Codex call. Candidate is the union of the two sides; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels.
Distilled classifier scores by category (both heads)
| Category | Codex | Gemma |
|---|---|---|
| Metaresearch | 0.001 | 0.005 |
| Meta-epidemiology (narrow) | 0.001 | 0.001 |
| Meta-epidemiology (broad) | 0.001 | 0.001 |
| Bibliometrics | 0.001 | 0.001 |
| Science and technology studies | 0.001 | 0.003 |
| Scholarly communication | 0.002 | 0.002 |
| Open science | 0.001 | 0.001 |
| Research integrity | 0.001 | 0.001 |
| Insufficient payload (model declined to judge) | 0.002 | 0.000 |
Machine scores (provisional)
The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.
Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.
score_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from itClassification
machine, unvalidatedMachine predicted; a candidate call from one source (direct Gemma or distilled Codex), not a consensus.
How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".