Additional file 11 of Apicidin biosynthesis is linked to accessory chromosomes in Fusarium poae isolates
Bibliographic record
Abstract
Additional file 11. Mirror plot of MS2 spectra from features annotated as apicidin (APS) and APS-G. Overlaid chemical structures are proposed ions associated with specific fragments. Top: spectra of m/z [M + H] + = 624.375 (APS structure top right). Spectra coloured purple are present in nearly all spectra associated with apicidins bearing O-methylated tryptophan moiety, including spectra annotated as APS, APS-B, APS-C, and APS-D2. Structures outlined in purple are those proposed to contain indole substructures. Notably, nominal masses 130 and 170 have been associated with tryptophan fragmentation elsewhere5,6. Bottom: spectra from parent m/z [M + H] + = 555.354 (annotated as APS-G, structure bottom right). Spectra coloured red are present uniquely from MS2 scans of this m/z, with corresponding proposed ion structures containing phenylalanine outlined in red. Spectra coloured green in bottom plot are m/z within 5 ppm match for spectra on top plot.
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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 | 0.012 |
| Meta-epidemiology (narrow) | 0.001 | 0.001 |
| Meta-epidemiology (broad) | 0.002 | 0.001 |
| Bibliometrics | 0.003 | 0.005 |
| Science and technology studies | 0.001 | 0.000 |
| Scholarly communication | 0.002 | 0.002 |
| Open science | 0.002 | 0.001 |
| Research integrity | 0.001 | 0.001 |
| Insufficient payload (model declined to judge) | 0.817 | 0.172 |
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".