Additional file 5 of The diet rapidly and differentially affects the gut microbiota and host lipid mediators in a healthy population
Bibliographic record
Abstract
Additional file 5: Figure S5. Clustering of bioactive lipid profiles. Principal component analysis (PCA) on bioactive lipid profiles. A) Loading plot representing the contribution of lipids from each category to the variability between individuals at different visits. Ellipses show the effect of B) diet and C) individuals on samples. The ellipses represent the 95% confidence interval of the mean of points as computed with the FactoMineR package for the effect of B) diet, C) participants and D) the five clusters of samples distinguished from hierarchical clustering of the PCA. E) Hierarchical clustering on principal components (HCPC) of lipid profile of individuals at different visits. Variables contributing to the difference between the clusters are displayed on the dendrogram. A colored bar is printed below the dendrogram represents the visit to which the sample belongs. F) Heatmap of the lipid concentration for each sample divided by cluster and molecule category. For better visualization, the concentration values were centered around the mean for each metabolite.
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 | 0.002 | 0.031 |
| Meta-epidemiology (narrow) | 0.002 | 0.001 |
| Meta-epidemiology (broad) | 0.002 | 0.001 |
| Bibliometrics | 0.002 | 0.003 |
| 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) | 0.906 | 0.146 |
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; the direct Gemma label and the distilled Codex classifier agree on what is shown here.
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".