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An In-Silico Investigation of Machine Learning for Integrating Genomic and Digital Biomarker Data in Cardiovascular Risk Stratification Immanuel Simbolon; Cindy Susanti; Gayatri Putri; Karina Chandra; Muhammad Yoshandi; Daniel Hilman Maulana
Natural Sciences Engineering and Technology Journal Vol. 5 No. 2 (2025): Natural Sciences Engineering and Technology Journal
Publisher : HM Publisher

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.37275/nasetjournal.v5i2.71

Abstract

Conventional models for stratifying cardiovascular disease (CVD) risk have limitations. The integration of static genomic data and dynamic digital biomarkers from wearable technology holds theoretical promise, but its potential quantitative impact remains poorly defined. This study aimed to develop and validate an in-silico framework to quantify the theoretical maximum predictive gain of an integrated risk model under idealized conditions. We developed a sophisticated data generating process (DGP) to create a synthetic dataset of 5,000 individuals. The DGP incorporated demographic and clinical variables with distributions and correlations based on epidemiological literature. It included a simulated polygenic risk score (PRS) for coronary artery disease and advanced digital biomarkers derived from wireless health monitoring data, such as heart rate variability (HRV) and time in moderate-to-vigorous physical activity (MVPA). The 10-year risk of Major Adverse Cardiovascular Events (MACE) was generated via a defined logistic function incorporating these variables plus stochastic noise. We compared the performance of the ACC/AHA Pooled Cohort Equations (PCE) against several machine learning models (Logistic Regression, Random Forest, XGBoost) using the area under the receiver operating characteristic curve (AUC-ROC), precision, recall, and F1-score. In this simulated environment, the integrated XGBoost model achieved near-optimal predictive performance with an AUC-ROC of 0.92 (95% CI, 0.90-0.94), significantly outperforming the benchmark PCE model (AUC-ROC 0.76; 95% CI, 0.73-0.79; p < 0.001). The inclusion of the PRS and, most notably, dynamic digital biomarkers like HRV, provided substantial incremental improvements in risk discrimination over traditional factors alone. In conclusion, this in-silico study demonstrates the substantial theoretical potential of integrating genomic and advanced digital biomarker data through machine learning for CVD risk stratification. While these idealized results are not directly generalizable, they provide a quantitative rationale for pursuing real-world data collection and validation studies. This work establishes a methodological proof-of-concept and highlights the potential for a paradigm shift toward more dynamic and personalized cardiovascular risk assessment.
Conserved Immune Activation and Compartment-Specific Dysregulation in Temporomandibular Joint Osteoarthritis Cartilage: A Cross-Species Transcriptomic Analysis Dedi Sucipto; Cindy Susanti; Vidhya Sathyakirti
Crown: Journal of Dentistry and Health Research Vol. 3 No. 2 (2025): Crown: Journal of Dentistry and Health Research
Publisher : Phlox Institute: Indonesian Medical Research Organization

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.59345/crown.v3i2.329

Abstract

Background: Temporomandibular joint osteoarthritis (TMJ-OA) is molecularly heterogeneous, and differences in tissue, species, and disease model complicate transcriptomic integration. Objective: This study aimed to identify conserved and compartment-specific transcriptional programs across complementary rabbit and rat TMJ-OA cartilage datasets. Methods: A targeted GEO screen identified rabbit post-traumatic TMJ-OA (GSE232867; paired condylar cartilage and superficial zone; three animals per condition) as the primary dataset and rat unilateral anterior crossbite TMJ-OA (GSE207461; three samples per condition) for pathway-level validation. Counts were filtered with edgeR, TMM-normalized, transformed with voom, and modeled with limma; rabbit analyses were blocked by animal. Differentially expressed features required BH-FDR < 0.05 and absolute log2 fold change >= 1. Ordered g:Profiler enrichment tested directional pathway concordance. Results: Rabbit condylar cartilage yielded 421 differentially expressed features (346 upregulated and 75 downregulated), the superficial zone yielded 180 (69 upregulated and 111 downregulated), and 135 showed a condition-by-compartment interaction. Immune-associated genes were prominent in condylar cartilage, whereas superficial-zone downregulation centered on mitotic programs. Only Morf4l2 met the strict rat threshold, but 13 upregulated pathways were concordant across species; leukocyte activation was strongest (conservative adjusted P = 2.16 x 10^-6). Conclusion: Pathway-level immune activation was the most reproducible signal across these animal TMJ-OA cartilage datasets, accompanied by compartment-specific proliferative dysregulation. Small preclinical bulk datasets preclude cell-specific or human inference.