Frontiers in Molecular Biosciences最新文献

{"title":"Ligand-receptor dynamics in heterophily-aware graph neural networks for enhanced cell type prediction from single-cell RNA-seq data.","authors":"Lian Duan, Mahshad Hashemi, Alioune Ngom, Luis Rueda","doi":"10.3389/fmolb.2025.1547231","DOIUrl":"10.3389/fmolb.2025.1547231","url":null,"abstract":"<p><p>Graph Neural Networks (GNNs) have emerged as powerful tools for analyzing structured data, particularly in domains where relationships and interactions between entities are key. By leveraging the inherent graph structure in datasets, GNNs excel in capturing complex dependencies and patterns that traditional neural networks might miss. This advantage is especially pronounced in the field of computational biology, where the intricate connections between biological entities play a crucial role. In this context, Our work explores the application of GNNs to single-cell RNA sequencing (scRNA-seq) data, a domain characterized by complex and heterogeneous relationships. By extracting ligand-receptor (L-R) associations from LIANA and constructing Cell-Cell association networks with varying edge homophily ratios, based on L-R information, we enhance the biological relevance and accuracy of depicting cellular communication pathways. While standard GNN models like Graph Convolutional Networks (GCN), GraphSAGE, Graph Attention Networks (GAT), and MixHop often assume homophily (similar nodes are more likely to be connected), this assumption does not always hold in biological networks. To address this, we explore advanced graph neural network methods, such as <math> <mrow> <msub><mrow><mtext>H</mtext></mrow> <mrow><mn>2</mn></mrow> </msub> </mrow> </math> Graph Convolutional Networks and Gated Bi-Kernel GNNs (GBK-GNN), that are specifically designed to handle heterophilic data. Our study spans across six diverse datasets, enabling a thorough comparison between heterophily-aware GNNs and traditional homophily-assuming models, including Multi-Layer Perceptrons, which disregards graph structure entirely. Our findings highlight the importance of considering data-specific characteristics in GNN applications, demonstrating that heterophily-focused methods can effectively decipher the complex patterns within scRNA-seq data. By integrating multi-omics data, including gene expression profiles and L-R interactions, we pave the way for more accurate and insightful analyses in computational biology, offering a more comprehensive understanding of cellular environments and interactions.</p>","PeriodicalId":12465,"journal":{"name":"Frontiers in Molecular Biosciences","volume":"12 ","pages":"1547231"},"PeriodicalIF":3.9,"publicationDate":"2025-05-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12104675/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144150084","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The significance of calcium ions in cerebral ischemia-reperfusion injury: mechanisms and intervention strategies.","authors":"Yong-Wang Li, Yu Liu, Sheng-Zhen Luo, Xiao-Juan Huang, Yan Shen, Wei-Si Wang, Zhi-Chen Lang","doi":"10.3389/fmolb.2025.1585758","DOIUrl":"10.3389/fmolb.2025.1585758","url":null,"abstract":"<p><p>Cerebral ischemia-reperfusion injury (CIRI) represents a multifaceted pathological phenomenon characterized by an array of molecular and cellular mechanisms, which significantly contribute to neurological dysfunction. Evidence suggests that calcium ions play an indispensable role in this context, as abnormal elevations in calcium concentrations exacerbate neuronal injury and intensify functional deficits. These ions are integral not only for intracellular signaling pathways but also for various pathological processes, such as programmed cell death, inflammatory responses, and oxidative stress. This review article elucidates the physiological framework of calcium homeostasis and the precise mechanisms through which calcium ions influence CIRI. Moreover, it addresses potential intervention strategies, including calcium channel blockers, calmodulin (CaM) inhibitors, antioxidants, and anti-inflammatory agents. Despite the proposal of certain intervention strategies, their effectiveness and safety in clinical settings warrant further scrutiny. In conclusion, the article highlights the limitations of current research and anticipates future investigative trajectories, aiming to provide a theoretical foundation and reference for the development of more efficacious treatment modalities.</p>","PeriodicalId":12465,"journal":{"name":"Frontiers in Molecular Biosciences","volume":"12 ","pages":"1585758"},"PeriodicalIF":3.9,"publicationDate":"2025-05-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12104078/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144150086","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Corrigendum: Avenanthramide-C ameliorate doxorubicin-induced hepatotoxicity via modulating Akt/GSK-3β and Wnt-4/β-Catenin pathways in male rats.","authors":"Maha Abdullah Alwaili, Amal S Abu-Almakarem, Salwa Aljohani, Sahar Abdulrahman Alkhodair, Maha M Al-Bazi, Thamir M Eid, Jehan Alamri, Maysa A Mobasher, Norah K Algarzae, Arwa Ishaq A Khayyat, Luluah Saleh Alshaygy, Karim Samy El-Said","doi":"10.3389/fmolb.2025.1601841","DOIUrl":"10.3389/fmolb.2025.1601841","url":null,"abstract":"<p><p>[This corrects the article DOI: 10.3389/fmolb.2024.1507786.].</p>","PeriodicalId":12465,"journal":{"name":"Frontiers in Molecular Biosciences","volume":"12 ","pages":"1601841"},"PeriodicalIF":3.9,"publicationDate":"2025-05-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12098949/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144141947","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Heat shock proteins in hypothermia: a review.","authors":"Shang-Jin Song, Guo-Cheng Wu, Li Yi, Xin Liu, Ming-Min Jiang, Xiao-Chen Zhang, Zi-Fei Yin, Wei Gu, Yi Ruan","doi":"10.3389/fmolb.2025.1564364","DOIUrl":"10.3389/fmolb.2025.1564364","url":null,"abstract":"<p><p>Hypothermia is a serious condition marked by a significant decrease in core body temperature, posing considerable risks to biological systems. In response to thermal stress, cells activate protective mechanisms, often synthesizing heat shock proteins (HSPs). These highly conserved proteins are crucial in cellular stress responses, primarily functioning as chaperones. HSPs facilitate correct protein folding and prevent misfolding and aggregation, thereby protecting cellular integrity during adverse conditions. This paper explains how HSPs alleviate stress responses related to low body temperature, focusing on energy metabolism, apoptosis, cellular membrane fluidity and stability, and stress signaling pathways. By enhancing cellular repair mechanisms, HSPs help maintain cellular balance and prevent further harm to the organism. Ultimately, the review emphasizes the complex relationship between cellular stress responses and HSPs in hypothermia, highlighting their potential as therapeutic targets for enhancing resistance to the harmful effects of extreme cold exposure. A deeper understanding of these mechanisms could lead to strategies that improve survival rates in hypothermic patients. It may also reveal ways to modulate HSPs' activity for enhanced cellular protection.</p>","PeriodicalId":12465,"journal":{"name":"Frontiers in Molecular Biosciences","volume":"12 ","pages":"1564364"},"PeriodicalIF":3.9,"publicationDate":"2025-05-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12098039/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144141892","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Metabolic insights into hypoxia adaptation in adolescent athletes at different altitudes: a cross-sectional study.","authors":"Carlos A R Sánchez, Daniel Pardo-Rodriguez, Erica Mancera-Soto, Lizeth León, Dailson Paulucio, Angelo D'Alessandro, Caleb G M Santos, Edgar Cristancho, Gustavo Monnerat, Diana M Ramos-Caballero, Mónica P Cala, Fernando Pompeu","doi":"10.3389/fmolb.2025.1571103","DOIUrl":"10.3389/fmolb.2025.1571103","url":null,"abstract":"<p><p>Athletes use hypoxic training methods to enhance their performance under altitude conditions. Comparative studies involving populations from low (500-2,000 m) and moderate (2,000-3,000 m) altitudes offer an opportunity to understand the mechanisms behind adaptations to hypoxia. The present study combined data from metabolomics analysis based on gas- and liquid-chromatography mass spectrometry (GC-MS and LC-MS) to compare plasma profiles from 80 adolescent athletes at moderate- or low altitudes. 161 metabolites were identified, including 84 elevated and 77 decreased in moderate-altitude adolescents compared to their low-altitude counterparts. Pathway analysis revealed that metabolites related to carbohydrates, amino acids, and lipid metabolism differed between groups. Lipid metabolism was significantly altered in moderate-altitude athletes, including pathways such as linolenic and linoleic acid, sphingolipid, and arachidonic acid, as well as processes involving the transfer of acetyl groups into mitochondria and fatty acid biosynthesis. Biomarker analysis looking for signatures of chronic adaptation to moderate altitude identified glycerol and 5-oxoproline metabolites amongst the variables with the strongest sensitivity and specificity. This study demonstrates differences in metabolic profiles between moderate- and low-altitude populations and highlights the potential of these differential metabolites and associated metabolic pathways to provide new insights into the mechanisms of adaptation to moderate altitude.</p>","PeriodicalId":12465,"journal":{"name":"Frontiers in Molecular Biosciences","volume":"12 ","pages":"1571103"},"PeriodicalIF":3.9,"publicationDate":"2025-05-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12098079/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144141893","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Engineered exosomes: a promising drug delivery platform with therapeutic potential.","authors":"Genevieve Schwarz, Xuechen Ren, Wen Xie, Haitao Guo, Yong Jiang, Jinyu Zhang","doi":"10.3389/fmolb.2025.1583992","DOIUrl":"10.3389/fmolb.2025.1583992","url":null,"abstract":"<p><p>Exosomes, small membranous vesicles naturally secreted by living cells, have garnered attention for their role in intercellular communication and therapeutic potential. Their low immunogenicity, high biocompatibility, and efficient biological barrier penetration make them promising drug delivery vehicles. This review spans research developments from 2010 to 2025, covering the engineering of exosomes to optimize cargo loading and targeting specificity. We discuss their applications in treating cardiovascular diseases, liver fibrosis, immune diseases, and neurological diseases, alongside ongoing clinical trials and industry progress. Future challenges include scalability, standardization, and minimizing off-target effects. We propose strategies to address these hurdles, such as bioengineering techniques and improved isolation methods. By synthesizing current knowledge and outlining future directions, this review aims to guide researchers toward harnessing exosomes for disease treatment.</p>","PeriodicalId":12465,"journal":{"name":"Frontiers in Molecular Biosciences","volume":"12 ","pages":"1583992"},"PeriodicalIF":3.9,"publicationDate":"2025-05-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12098103/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144141950","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Identification of biomarkers and immune microenvironment associated with heart failure through bioinformatics and machine learning.","authors":"Jingyun Jin, Shuyan Qin, Qiang Fu, Changzhi Yu, Hongjin Wu","doi":"10.3389/fmolb.2025.1580880","DOIUrl":"10.3389/fmolb.2025.1580880","url":null,"abstract":"<p><strong>Background: </strong>Heart failure (HF) is the end stage of various cardiovascular diseases. Identifying new biomarkers is essential for early diagnosis, prognosis, and treatment. This study applied bioinformatics to identify potential HF biomarkers and explore the role of the immune microenvironment.</p><p><strong>Methods: </strong>Gene expression data were obtained from the Gene Expression Omnibus (GEO) database. Differential expression analysis and Weighted Gene Co-expression Network Analysis (WGCNA) were used to identify key genes. Gene Ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG), and Gene Set Enrichment Analysis were performed. Feature genes were further determined using two machine learning algorithms, Random Forest (RF) and Least Absolute Shrinkage and Selection Operator (LASSO), with diagnostic accuracy assessed via Receiver Operating Characteristic (ROC) curves and nomograms to screen hub genes, and external datasets further were used for validation. Quantitative reverse transcription polymerase chain reaction (RT-qPCR) was used to validate the expression levels of hub genes in clinical samples. Single Sample Gene Set Enrichment Analysis and CIBERSORT algorithm were applied to evaluate immune cell infiltration in HF and its relationship with hub genes.</p><p><strong>Results: </strong>Differential analysis identified 165 differentially expressed genes (DEGs), and WGCNA revealed the \"blue\" module showing a significant correlation with HF. Integration of the DEGs and the \"blue\" module genes identified 28 common genes. KEGG pathway enrichment analysis suggested that these genes may be involved in the cytoskeleton in muscle cells pathway. Lasso and RF algorithms confirmed 7 key genes as potential biomarkers for HF, and further analysis using the ROC curve identified 4 hub genes with good diagnostic value, namely, High mobility group N 2 (<i>HMGN2</i>), Myosin Heavy Chain 6 (<i>MYH6</i>), High temperature requirement A1 (<i>HTRA1</i>), and Microfibrillar-associated protein 4 (<i>MFAP4</i>), which were validated in an external dataset and by RT-qPCR. Immune infiltration analysis revealed significant infiltration of immune cells in HF. T cells, NK cells, monocytes, and M2 macrophages play important roles in the development of HF, and the hub genes were closely associated with multiple immune cell types.</p><p><strong>Conclusion: </strong>This study identifies <i>HMGN2</i>, <i>HTRA1</i>, <i>MFAP4</i>, and <i>MYH6</i> as novel diagnostic biomarkers and potential therapeutic targets for HF. These genes are closely related to the immune microenvironment, providing new insights into the early diagnosis, treatment, and mechanistic exploration of HF.</p>","PeriodicalId":12465,"journal":{"name":"Frontiers in Molecular Biosciences","volume":"12 ","pages":"1580880"},"PeriodicalIF":3.9,"publicationDate":"2025-05-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12095026/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144126794","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Role of miRNA in adult ocular tumorigenesis.","authors":"Arianna Romani, Elisabetta Melloni, Giada Lodi, Francesca Bompan, Rebecca Foschi, Enrico Zauli, Elena Pozza, Paola Secchiero, Giorgio Zauli, Maurizio Previati, Rebecca Voltan","doi":"10.3389/fmolb.2025.1459761","DOIUrl":"10.3389/fmolb.2025.1459761","url":null,"abstract":"<p><p>In recent years, cancer research has made huge advances also thanks to the discovery of the role of non-coding RNAs in the control of tumorigenesis, tumor proliferation, migration and metastasis and therefore also in the diagnosis and therapy of tumors. This work aims to review the most recent literature involving the study of miRNAs in ocular tumors affecting adult patients. We will introduce the role of miRNAs in tumorigenesis, and we will focus on summarizing the studies on uveal intraocular melanomas in which a role of microRNAs has been demonstrated. Similarly, we will also cover observations on miRNAs and eyelid cancers, especially sebaceous gland carcinoma, and cancers of the conjunctiva and the retina, excluding retinoblastoma which is typically a pediatric-onset tumor. We will summarize specific miRNAs that could be considered as diagnostic molecules or as therapeutic targets against some ocular cancer diseases, indicating their potentialities and limitations, considering also their administration as nanomedicine for the eye.</p>","PeriodicalId":12465,"journal":{"name":"Frontiers in Molecular Biosciences","volume":"12 ","pages":"1459761"},"PeriodicalIF":3.9,"publicationDate":"2025-05-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12095013/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144126859","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Untargeted metabolomics for acute intra-abdominal infection diagnosis in serum and urine using UHPLC-TripleTOF MS.","authors":"Zhenhua Dong, Shaopeng Zhang, Hongwei Zhang, Dingliang Zhao, Ziwen Pan, Daguang Wang","doi":"10.3389/fmolb.2025.1534102","DOIUrl":"10.3389/fmolb.2025.1534102","url":null,"abstract":"<p><strong>Introduction: </strong>Acute intra-abdominal infection (IAI) is a prevalent and life-threatening condition in general surgery, with significant implications for patient mortality. However, the timely identification of IAI is often hindered by the limitations of current medical laboratory sciences and imaging diagnostics.</p><p><strong>Methods: </strong>To address this critical issue, we employed metabolomics to identify early biomarkers for IAI. In this study, we enrolled a cohort of 30 IAI patients and 20 healthy volunteers. Following preliminary experimental processing, all serum and urinary samples were subjected to ultrahigh performance liquid chromatography-triple time-of-flight mass spectrometry analysis. Initial metabolite profiling was conducted using total ion current chromatography and principal component analysis. Differential metabolites were subsequently identified through Student's t-test, partial least squares discriminant analysis, and support vector machine. Hierarchical clustering analysis was then applied to assess the discriminatory power of the selected metabolites. Based on receiver operating characteristic curve analysis, we identified the most promising biomarkers, which were further subjected to enrichment analysis. Additionally, we stratified patients according to the severity and etiology of IAI to explore potential differences among these subgroups.</p><p><strong>Results: </strong>Our findings revealed five serum and two urinary metabolites as potential biomarkers for IAI. The serum biomarkers were associated with the Fatty Acid Biosynthesis pathway, while the urinary biomarkers were linked to the Catecholamine Biosynthesis pathway. Notably, no significant differences were observed among the three types of IAI or the seven etiologies studied.</p><p><strong>Discussion: </strong>For individuals at risk of IAI, regular screening of these biomarkers could facilitate the early and convenient identification of the condition, thereby improving patient outcomes.</p>","PeriodicalId":12465,"journal":{"name":"Frontiers in Molecular Biosciences","volume":"12 ","pages":"1534102"},"PeriodicalIF":3.9,"publicationDate":"2025-05-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12094940/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144126872","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Exploring focal adhesion data: dynamic parameter extraction from FRAP and FLAP experiments using chemical master equation.","authors":"Luciana Renata de Oliveira, Matheus Gimenez Fernandes, José Salvatore Leister Patane, Jean-Marc Schwartz, José Eduardo Krieger, Christoph Ballestrem, Ayumi Aurea Miyakawa","doi":"10.3389/fmolb.2025.1587608","DOIUrl":"10.3389/fmolb.2025.1587608","url":null,"abstract":"<p><p>The dynamic behavior of proteins within cellular structures can be studied using fluorescence recovery after photobleaching (FRAP) and fluorescence loss after photobleaching (FLAP) experiments. These techniques provide insights into molecular mobility by estimating parameters such as turnover rates <math><mrow><mo>(</mo> <mrow> <msub><mrow><mi>k</mi></mrow> <mrow><mi>T</mi></mrow> </msub> </mrow> <mo>)</mo></mrow> </math> and diffusion coefficients (D). However, traditional deterministic models often rely on simplifying assumptions that may not fully capture the stochastic nature of molecular interactions. In this study, we developed a novel stochastic model based on the analytical solution of the chemical master equation to extract dynamic parameters from FRAP and FLAP experiments in the focal adhesion (FA) network. Our approach extends beyond standard FRAP/FLAP analysis by inferring additional parameters, such as protein-specific entry <math><mrow><mo>(</mo> <mrow> <msub><mrow><mi>k</mi></mrow> <mrow><mi>I</mi> <mi>n</mi></mrow> </msub> </mrow> <mo>)</mo></mrow> </math> and exit <math><mrow><mo>(</mo> <mrow> <msub><mrow><mi>k</mi></mrow> <mrow><mi>Out</mi></mrow> </msub> </mrow> <mo>)</mo></mrow> </math> rates, allowing a deeper understanding of protein turnover and interactions. To validate our model, we analyzed previously published experimental data from NIH3T3 fibroblasts expressing GFP-tagged FA proteins, including tensin 1, talin, vinculin, <math><mrow><mi>α</mi></mrow> </math> -actinin, ILK, <math><mrow><mi>α</mi></mrow> </math> -parvin, kindlin-2, paxillin, p130Cas, VASP, FAK, and zyxin. These proteins participate in mechanotransduction, cytoskeletal organization, and adhesion regulation, exhibiting distinct dynamic behaviors within FA structures. Furthermore, we constructed an interaction network to quantify how vinculin and actin influence talin dynamics, leveraging our model to uncover their regulatory roles in FA turnover. Using an analytical solution of the chemical master equation, our framework provides a generalizable approach for studying protein dynamics in any system where FRAP and FLAP data are available. It can be applied to new experimental datasets and reanalyzed from existing data, revealing previously inaccessible molecular interactions and enhancing our understanding of FA dynamics and broader cellular processes.</p>","PeriodicalId":12465,"journal":{"name":"Frontiers in Molecular Biosciences","volume":"12 ","pages":"1587608"},"PeriodicalIF":3.9,"publicationDate":"2025-05-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12088951/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144110313","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}