237 Jejunum lymph node transcriptome reveals the importance of genes of phagosome and T cell receptor signalling pathways in Mycobacterium avium ssp. paratuberculosis infection.
Bibliographic record
Abstract
Mycobacterium avium ssp. paratuberculosis (MAP) is the causative agent of Johne’s disease (JD). MAP infects ruminants and resides in the intestinal submucosa, macrophages/dendritic cells causing progressive weight loss and decreased productivity. The molecular mechanisms by which MAP subverts host immune system causing extensive formation of granulomas and tissue damage are poorly understood.HRSP12 (p=4.43E-05), PCDHGA5 (p=4.43E-05), NFYA (p=1.48E-04) and HLA-DOB (p=1.48E-04) might have proles in MAP infection. For example, HLA-DOB gene encodes a protein in the MHC Class II with critical roles in the initiation of antigen-specific immune responses. Phagolysosome membrane (p.FDR=3e-08) and neutrophil degranulation (p.FDR=6.83–07) were the most enriched cellular components and biological processes GO terms, respectively, thus supporting the roles of genes in these immune related processes in the regulation of JD. Pathways enrichment identified phagosome, metabolic, tuberculosis, carbon metabolism, Vibrio cholerae infection pathways, and pathways essential for T-cell functions (RAC1 signaling, TCR signaling in naive CD4+ T cells and CD8+ T cells, Thromboxane A2 receptor and IL8 signalling pathways) as important for MAP infection.
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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 | 0.000 |
| Meta-epidemiology (narrow) | 0.000 | 0.000 |
| Meta-epidemiology (broad) | 0.000 | 0.001 |
| Bibliometrics | 0.001 | 0.001 |
| Science and technology studies | 0.000 | 0.000 |
| Scholarly communication | 0.001 | 0.000 |
| Open science | 0.000 | 0.001 |
| Research integrity | 0.000 | 0.001 |
| Insufficient payload (model declined to judge) | 0.004 | 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".