Revealing the critical state and identifying individualized dynamic network biomarker for type 2 diabetes through advanced analysis methods on individual basis

Scientific Reports, Journal Year: 2025, Volume and Issue: 15(1)

Published: Jan. 31, 2025

Complex diseases may not always progress in a gradual manner. In the early stages of complex diseases, obvious symptoms are usually observable, but there is commonality: brief state predisease between progression from normal to disease state, which includes three stages: critical predisease, and state. Identifying this especially with single sample an individual, remains difficult task. study, we applied methods, i.e., single-sample Jensen–Shannon Divergence (sJSD), network information gain (NIG), temporal flow entropy (TNFE) method, simulated dataset type 2 diabetes (GSE13268 GSE13269). Three different methods were utilized create indexes, including Inconsistency Index (ICI), NIG, TNFE, measure overall disruption caused by individual samples compared set reference samples. Changes these indexes used identify states during disease. Results numerical simulations show effectiveness methods. All can detect two based on sample, respectively at 8 weeks 16 for GSE13268 4 GSE13269, indicating before deterioration be detected dynamic biomarkers (DNBs) identified successfully. But differences sensitivity predictive indicators The also significantly different. addition, computational principles compared. proposed effectively DNB, solely sample. data-driven model-free basis. sJSD method more sensitive while NIG TNFE robust effective. They therefore only help future studies personalized diagnosis provide better insight into clinical practice.

Language: Английский

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Applications of gene pair methods in clinical research: advancing precision medicine

Molecular Biomedicine, Journal Year: 2025, Volume and Issue: 6(1)

Published: April 9, 2025

Abstract The rapid evolution of high-throughput sequencing technologies has revolutionized biomedical research, producing vast amounts gene expression data that hold immense potential for biological discovery and clinical applications. Effectively mining these large-scale, high-dimensional is crucial facilitating disease detection, subtype differentiation, understanding the molecular mechanisms underlying progression. However, conventional paradigm single-gene profiling, measuring absolute levels individual genes, faces critical limitations in implementation. These include vulnerability to batch effects platform-dependent normalization requirements. In contrast, emerging approaches analyzing relative relationships between pairs demonstrate unique advantages. By focusing on binary comparisons two genes’ magnitudes, methods inherently normalize experimental variations while capturing biologically stable interaction patterns. this review, we systematically evaluate pair-based analytical frameworks. We classify eleven computational into fundamental categories: value-based quantifying differential patterns, rank-based exploiting transcriptional ordering relationships. To bridge methodological development with practical implementation, establish a reproducible pipeline incorporating feature selection, classifier construction, model evaluation modules using real-world benchmark datasets from pulmonary tuberculosis studies. findings position pair analysis as transformative omics data, direct implications precision biomarker mechanistic studies

Language: Английский

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Cardamonin intervenes in myocardial hypertrophy progression by regulating Usp18

Phytomedicine, Journal Year: 2024, Volume and Issue: 134, P. 155970 - 155970

Published: Aug. 19, 2024

Myocardial hypertrophy is a chronic cardiac condition that often occurs from long-term pressure or volumetric load on the heart. Propranolol hydrochloride has been employed in research hypertension, pheochromocytoma, myocardial infarction, arrhythmias, angina pectoris, and hypertrophic cardiomyopathy. Current treatments for this have side effects, such as arrhythmias cell death, thus necessitating safer more effective alternatives. Recently, natural products gained attention drug development because of their low toxicity high efficacy. Cardamonin, compound derived Chinese herbal materials, shown potential inhibiting oxidative stress inflammation, which beneficial cardiovascular health. Nevertheless, impact remodeling still uncertain METHODS: Approach We transverse aortic constriction (TAC)model to simulate pathological conditions hypertrophy. Mice were administered varying doses CAR (10 40 mg kg

Language: Английский

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IFIT2 mediates iron retention and cholesterol efflux in atherosclerosis

International Immunopharmacology, Journal Year: 2024, Volume and Issue: 142, P. 113131 - 113131

Published: Sept. 13, 2024

Language: Английский

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