Clinical and omics biomarkers in osteoarthritis diagnosis and treatment

Journal of Orthopaedic Translation, Journal Year: 2025, Volume and Issue: 50, P. 295 - 305

Published: Jan. 1, 2025

Language: Английский

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circ0066187 promotes pulmonary fibrogenesis through targeting STAT3-mediated metabolism signal pathway

Cellular and Molecular Life Sciences, Journal Year: 2025, Volume and Issue: 82(1)

Published: Feb. 19, 2025

Language: Английский

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Unraveling the epigenetic landscape of pulmonary arterial hypertension: implications for personalized medicine development

Journal of Translational Medicine, Journal Year: 2023, Volume and Issue: 21(1)

Published: July 17, 2023

Pulmonary arterial hypertension (PAH) is a multifactorial disease associated with the remodeling of pulmonary blood vessels. If left unaddressed, PAH can lead to right heart failure and even death. Multiple biological processes, such as smooth muscle proliferation, endothelial dysfunction, inflammation, resistance apoptosis, are PAH. Increasing evidence suggests that epigenetic factors play an important role in by regulating chromatin structure altering expression critical genes. For example, aberrant DNA methylation histone modifications acetylation have been observed patients linked vascular dysfunction. In this review article, we provide comprehensive overview key targets pathogenesis, including methyltransferase (DNMT), ten-eleven translocation enzymes (TET), switch-independent 3A (SIN3A), enhancer zeste homolog 2 (EZH2), deacetylase (HDAC), bromodomain-containing protein 4 (BRD4). Finally, discuss potential multi-omics integration better understand molecular signature profile how approach help identify personalized treatment approaches.

Language: Английский

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Efficient Sample Preparation System for Multi-Omics Analysis via Single Cell Mass Spectrometry

Analytical Chemistry, Journal Year: 2023, Volume and Issue: 95(18), P. 7212 - 7219

Published: April 20, 2023

Mass spectrometry (MS) has become a powerful tool for metabolome, lipidome, and proteome analyses. The efficient analysis of multi-omics in single cells, however, is still challenging the manipulation cells lack in-fly cellular digestion extraction approaches. Here, we present streamlined strategy highly automatic single-cell by MS. We developed 10-pL-level microwell chip housing individual whose proteins were found to be digested 5 min, which 144 times shorter than traditional bulk digestion. Besides, an automated picoliter system was sampling metabolites, phospholipids, tandem from same cell. Also, 2 min MS2 spectra obtained 700 pL solution cell sample. In addition, 1391 proteins, metabolites detected one within 10 min. further analyzed cancer tissue samples, achieving up 40% increase classification accuracy using comparison with single-omics analysis. This MS analyzing information investigation heterogeneity phenotyping biomedical applications.

Language: Английский

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Mapping disease regulatory circuits at cell-type resolution from single-cell multiomics data

Nature Computational Science, Journal Year: 2023, Volume and Issue: 3(7), P. 644 - 657

Published: July 25, 2023

Abstract Resolving chromatin-remodeling-linked gene expression changes at cell-type resolution is important for understanding disease states. Here we describe MAGICAL (Multiome Accessibility Gene Integration Calling and Looping), a hierarchical Bayesian approach that leverages paired single-cell RNA sequencing transposase-accessible chromatin from different conditions to map disease-associated transcription factors, sites, genes as regulatory circuits. By simultaneously modeling signal variation across cells in both omics data types, achieved high accuracy on circuit inference. We applied study Staphylococcus aureus sepsis peripheral blood mononuclear generated subjects with bloodstream infection uninfected controls. identified sepsis-associated circuits predominantly CD14 monocytes, known be activated by bacterial sepsis. addressed the challenging problem of distinguishing host responses methicillin-resistant methicillin-susceptible S. infections. Although differential analysis failed show predictive value, epigenetic biomarkers distinguished

Language: Английский

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Prioritization of genes for translation: a computational approach

Expert Review of Proteomics, Journal Year: 2024, Volume and Issue: 21(4), P. 125 - 147

Published: April 2, 2024

Introduction Gene identification for genetic diseases is critical the development of new diagnostic approaches and personalized treatment options. Prioritization gene translation an important consideration in molecular biology field, allowing researchers to focus on most promising candidates further investigation.

Language: Английский

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Longitudinal multi-omics study reveals common etiology underlying association between plasma proteome and BMI trajectories in adolescent and young adult twins

BMC Medicine, Journal Year: 2023, Volume and Issue: 21(1)

Published: Dec. 21, 2023

The influence of genetics and environment on the association plasma proteome with body mass index (BMI) changes in BMI remains underexplored, links to other omics these associations remain be investigated. We characterized protein-BMI trajectory adolescents adults how connect layers.

Language: Английский

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Explainable and programmable hypergraph convolutional network for imaging genetics data fusion

Information Fusion, Journal Year: 2023, Volume and Issue: 100, P. 101950 - 101950

Published: Aug. 2, 2023

Language: Английский

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Revolutionizing Biological Science: The Synergy of Genomics in Health, Bioinformatics, Agriculture, and Artificial Intelligence

OMICS A Journal of Integrative Biology, Journal Year: 2023, Volume and Issue: 27(12), P. 550 - 569

Published: Dec. 1, 2023

With climate emergency, COVID-19, and the rise of planetary health scholarship, binary human ecosystem has been deeply challenged. The interdependence nonhuman animal is increasingly acknowledged paving way for new frontiers in integrative biology. convergence genomics health, bioinformatics, agriculture, artificial intelligence (AI) ushered a era possibilities applications. However, sheer volume genomic/multiomics big data generated also presents formidable sociotechnical challenges extracting meaningful biological, ecological insights. Over past few years, AI-guided bioinformatics emerged as powerful tool managing, analyzing, interpreting complex biological datasets. advances AI, particularly machine learning deep learning, have transforming fields genomics, agriculture. This article aims to unpack explore range that result from such transdisciplinary integration, emphasizes its radically transformative potential health. integration these disciplines driving significant advancements precision medicine personalized care. an unprecedented opportunity deepen our understanding systems advance well-being all life ecosystems. Notwithstanding mind sociotechnical, ethical, critical policy challenges, multiomics, agriculture with opens up vast opportunities transnational collaborative efforts, sharing, analysis, valorization, interdisciplinary innovations sciences

Language: Английский

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Recent progress in quantitative phosphoproteomics

Expert Review of Proteomics, Journal Year: 2023, Volume and Issue: 20(12), P. 469 - 482

Published: Dec. 2, 2023

Introduction Protein phosphorylation is a critical post-translational modification involved in the regulation of numerous cellular processes from signal transduction to modulation enzyme activities. Knowledge on dynamic changes levels during biological processes, under various treatments or between healthy and disease models fundamental for understanding role each event. Thereby, LC-MS/MS based technologies combination with quantitative proteomics strategies evolved as powerful strategy investigate function individual protein events.

Language: Английский

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