Molecular Armory of S. Typhi: Deciphering the Putative Arsenal of Our Enemy
Bibliographic record
Abstract
The outer surface of bacteria is the first to interact with host components, such as the immune system, the extracellular matrix or cells. The bacterial Gram-negative cell wall is complex and composed of an inner membrane (IM), a periplasmic space and a thin peptidoglycan layer, all surrounded by an outer membrane (OM). The OM is a bilayered structure consisting mainly of phospholipids, proteins and lipopolysaccharide (LPS) and serves as an impermeable barrier to prevent the escape of periplasmic molecules but also acts as a barrier for entry of external molecules. Salmonella enterica comprises more than 2500 serovars, based on three major antigens located at the cell surface: O antigen, capsule and flagella. All serovars are highly conserved genetically but have different host ranges and cause different diseases. In humans, Salmonella infection causes gastroenteritis, often associated with serovars Typhimurium and Enteritidis or typhoid-like disease, which is associated with serovars Typhi and Paratyphi. S. Typhi strains belong to serogroup D1 with the antigenic formula O:9,12; Vi+; H-d. These strains are human-restricted and besides asymptomatic carriers, no environmental reservoir is known.
Fetched live from OpenAlex and de-inverted. Abstracts are not stored in this database: the inverted indexes are 8.6 GB of the frame’s 9.3 GB of text, and the host has 13 GB free.
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 | 0.000 |
| Meta-epidemiology (narrow) | 0.001 | 0.000 |
| Meta-epidemiology (broad) | 0.000 | 0.000 |
| Bibliometrics | 0.001 | 0.001 |
| Science and technology studies | 0.000 | 0.001 |
| Scholarly communication | 0.001 | 0.002 |
| Open science | 0.000 | 0.001 |
| Research integrity | 0.001 | 0.001 |
| Insufficient payload (model declined to judge) | 0.009 | 0.005 |
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".