A survey of <i>cis</i> regulatory non-coding RNA involved in bacterial virulence
Bibliographic record
Abstract
Abstract Study of pathogenesis in bacteria is important to find new drug targets to treat bacterial infections. Pathogenic bacteria, including opportunists, express numerous so-called virulence genes to escape the host natural defenses and immune system. Regulation of virulence genes is often required for bacteria to infect their host. Such regulation can be achieved by cis -regulatory RNAs, like the metabolite-binding riboswitches or thermoregulators. In spite of the hundreds of RNA families annotated as cis-regulatory, there are relatively few examples of non-coding RNAs (ncRNAs) in 5′-UnTranslated Regions (UTRs) of bacteria described to regulate downstream virulence genes. To reassess the potential roles of such regulatory elements in bacterial pathogenesis, we collected genes important for virulence from different databases and evaluated the presence of ncRNAs in their UTRs to highlight the potential role of this type of gene regulation for virulence and, at the same time, get insight on some of the physical and chemical triggers of virulence.
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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 | 0.000 | 0.001 |
| Meta-epidemiology (narrow) | 0.001 | 0.000 |
| Meta-epidemiology (broad) | 0.001 | 0.001 |
| Bibliometrics | 0.002 | 0.003 |
| Science and technology studies | 0.000 | 0.000 |
| Scholarly communication | 0.001 | 0.000 |
| Open science | 0.000 | 0.000 |
| Research integrity | 0.000 | 0.000 |
| Insufficient payload (model declined to judge) | 0.002 | 0.001 |
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".