Additional file 1 of Interferon and interferon-induced cytokines as markers of impending clinical progression in ANA+ individuals without a systemic autoimmune rheumatic disease diagnosis
Bibliographic record
Abstract
Additional file 1: Supplementary Table 1. Clinical Characteristics of Progressors. Supplementary Table 2. Comparison of Baseline Clinical Characteristics in UCTD progressors and non-progressors. Supplementary Table 3. The IFN5 score as a predictor of clinical progression in ANA+ subjects lacking a SARD diagnosis, alone or in combination with other cytokines. Supplementary Figure 1. Cytokine levels in the ANA+ participant subsets stratified by sex. Scatterplots showing the results for the IFN5 score and the cytokines, IFN-α measured by high sensitivity ELISA, IFN-α measured by Simoa, CXCL-10, Galectin-9, and IFN-γ (all shown using logarithmic scales). From left to right, are shown results for healthy controls (ANA-HC), asymptomatic ANA+ individuals (ANA+NS), undifferentiated connective tissue disease (UCTD) patients, and systemic autoimmune rheumatic disease (SARD) patients (F, female; M, male). Each circle represents a single subject, with the bars indicating the median for the subjects and error bars denoting the interquartile range. Significant differences between males and females are indicated with asterisks, * p < 0.05, ** p < 0.01, and *** p < 0.001. Supplementary Figure 2. Cytokine levels in the ANA+ participant subsets stratified by ethnicity. Scatterplots showing the results for the IFN5 score and the cytokines, IFN-α measured by high sensitivity ELISA, IFN-α measured by Simoa, CXCL-10, Galectin-9, and IFN-γ (all shown using logarithmic scales). From left to right, are shown results for healthy controls (ANA-HC), asymptomatic ANA+ individuals (ANA+NS), undifferentiated connective tissue disease (UCTD) patients, and systemic autoimmune rheumatic disease (SARD) patients (C, Caucasian; NC, non-Caucasian). Each circle represents a single subject, with the bars indicating the median for the subjects and error bars denoting the interquartile range. Significant differences between Caucasians and non-Caucasians are indicated with asterisks, * p < 0.05, ** p < 0.01, and **** p < 0.0001. Supplementary Figure 3. Receiver operating characteristic curves for prediction of clinical progression in subjects followed for ≥ 2 years using the various cytokine measures. The clinical and serologic characteristics of the clinical progressor (n=13) and non-progressor (n=42) subjects are shown in Table 1. Results are shown for the IFN5 score and the cytokines, IFN-α measured by high sensitivity ELISA, IFN-α measured by Simoa, CXCL-10, Galectin-9, and IFN-γ. Numbers in brackets following the cytokine labels and the black dot on the curve indicate the calculated value of Youden’s Index, comparing progressors and non-progressors. The area under the curve (AUC) is shown in the bottom right corner.
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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 | 0.002 | 0.032 |
| Meta-epidemiology (narrow) | 0.001 | 0.001 |
| Meta-epidemiology (broad) | 0.001 | 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) | 0.868 | 0.129 |
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".