Phenomics (Cham, Switzerland)最新文献

{"title":"Integrin α6 Targeted Tumor Theranostics.","authors":"Xinling Li, Kaili Xie, Qiaoli Wang, Jiacong Ye, Wenbiao Zhang, Jie Yang, Musheng Zeng, Guokai Feng","doi":"10.1007/s43657-024-00194-6","DOIUrl":"https://doi.org/10.1007/s43657-024-00194-6","url":null,"abstract":"<p><p>Integrins mediate cell adhesion and transmit cellular chemical and mechanical signals bidirectionally. Abnormal activation of integrin signals drives tumor initiation, invasion, metastasis, and therapeutic resistance. Therefore, integrins are ideal tumor theranostic biomarkers. Among the 24 known human integrins, the integrin αvβ3 has been the most intensively studied in tumor theranostics in the past 20 years. Here, we focus on the laminin receptors integrin α6β1 and α6β4, which consist of the α6 integrin subunit and either the β1 or β4 integrin subunit, respectively. Both of these proteins are overexpressed in many cancers, and their expression has been linked to poor prognosis in some cancers. Over the last decade, we and our collaborators have developed several types of integrin α6-targeted probes, including single-photon emission computed tomography (SPECT), positron emission tomography (PET), magnetic resonance imaging (MRI) and near-infrared fluorescent imaging (NIRF) probes, for the molecular imaging of tumors. Among them, an integrin α6-targeted SPECT probe has been proven to be safe and efficient for detecting breast cancer in the first-in-human pilot study. Moreover, we have developed integrin α6-targeted therapeutic strategies for the treatment of tumors. In this review, we highlight the latest progress in integrin α6-targeted tumor theranostics.</p>","PeriodicalId":74435,"journal":{"name":"Phenomics (Cham, Switzerland)","volume":"5 5","pages":"590-606"},"PeriodicalIF":6.2,"publicationDate":"2026-01-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12881227/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146144788","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Insights into the Molecular Pathogenesis of Short Stature: the Role of the <i>IHH</i> c.331_333del Mutation and Implications for Treatment.","authors":"Yufan Ke, Jianyuan Zhao","doi":"10.1007/s43657-025-00278-x","DOIUrl":"https://doi.org/10.1007/s43657-025-00278-x","url":null,"abstract":"","PeriodicalId":74435,"journal":{"name":"Phenomics (Cham, Switzerland)","volume":"5 6","pages":"784-786"},"PeriodicalIF":6.2,"publicationDate":"2026-01-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12886623/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146168475","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Investigating the Mechanisms of Combined Therapy for MCF-7 Breast Cancer Cells Using Arsenic Trioxide and Resveratrol through Network Pharmacology.","authors":"Hongye Hu, Yanzhi Wu, Jingwei Hong, Huiying Wang, Xiaohua Zhang, Guanli Huang, Xiaofang Zhu","doi":"10.1007/s43657-025-00218-9","DOIUrl":"10.1007/s43657-025-00218-9","url":null,"abstract":"<p><p>Breast cancer (BC) remains the predominant form of cancer among women. Arsenic trioxide (ATO), an element in traditional Chinese medicine, has shown potential for treating BC, particularly when combined with resveratrol. However, the exact mechanisms of their combined action are not fully understood. This study aims to clarify their combined mechanisms through network pharmacology and experimental validation. In vitro experiments confirmed that compared with either agent alone, the combination of ATO and resveratrol more effectively inhibited the production of <i>estrogen receptor 1</i> (<i>ESR1</i>), <i>tumor protein P53</i> (<i>TP53</i>), and <i>v-AKT murine thymoma viral oncogene homolog 1</i> (<i>AKT1</i>) in MCF-7 cells. Our findings indicate that the combination of ATO and resveratrol significantly promotes cell apoptosis by suppressing <i>ESR1</i>, <i>TP53</i>, and <i>AKT1</i>. Thus, ATO and resveratrol together may offer a promising strategy for BC treatment.</p>","PeriodicalId":74435,"journal":{"name":"Phenomics (Cham, Switzerland)","volume":"5 6","pages":"697-706"},"PeriodicalIF":6.2,"publicationDate":"2025-12-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12886575/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146168509","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Body Composition-Derived Subtypes in Tibetan Adults Residing at Qinghai-High Plateau and Their Associations with Distinct Metabolite Profiles and Cardiometabolic Outcomes.","authors":"Tiemei Li, Lin Shi, Qingxia Huang, Ruijie Xu, Bin Zhang, Dan Zhang, Qi Wang, Haijing Wang, Li Tong, Huiru Tang, Youfa Wang, Wen Peng","doi":"10.1007/s43657-025-00264-3","DOIUrl":"https://doi.org/10.1007/s43657-025-00264-3","url":null,"abstract":"","PeriodicalId":74435,"journal":{"name":"Phenomics (Cham, Switzerland)","volume":"5 6","pages":"779-783"},"PeriodicalIF":6.2,"publicationDate":"2025-12-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12886680/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146168411","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Quantifying Individual Health Status from Multi-omics Data by Health State Manifold.","authors":"Xinyan Zhang, Chengming Zhang, Yanpu Wu, Xu Lin, Xiaoping Liu, Luonan Chen","doi":"10.1007/s43657-024-00188-4","DOIUrl":"10.1007/s43657-024-00188-4","url":null,"abstract":"<p><p>Quantifying individual health status from increasingly accumulated omics data is essential for both early prevention and intervention of diseases, which attracts great attention from communities of biology and medicine. Most of the existing approaches mainly classify individuals into different catalogues or classes based on phenotypes and biomarkers. However, an individual's health status from a dynamical systems viewpoint can be viewed as a non-equilibrium steady state, which can generally be characterized by two key features, i.e. (1) homeostatic potential that represents the ability of homeostatic resilience to withstand perturbations or maintain functions at the current state/phenotype of this individual and (2) phenotypic potential that represents the state/phenotype of the individual on the whole process from health to disease. Here, we proposed a health state manifold (HSM) method derived from dynamic network biomarker method and diffusion map theory to quantify individual health status with the characterization of such two features in a robust and accurate manner based on multi-omics data. To verify our method, HSM method was applied to the quantification of diabetes mellitus (rat subjects) and the Roux-en-Y Gastric Bypass (human subjects) for both disease progression process and recovery process, which demonstrated its effectiveness and potential for personalized medicine and preventive medicine.</p><p><strong>Supplementary information: </strong>The online version contains supplementary material available at 10.1007/s43657-024-00188-4.</p>","PeriodicalId":74435,"journal":{"name":"Phenomics (Cham, Switzerland)","volume":"5 5","pages":"469-486"},"PeriodicalIF":6.2,"publicationDate":"2025-12-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12881232/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146144928","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"MRI Denoising: A Novel Model to Enhance Diagnostic Confidence in Cerebral Small Vessel Disease.","authors":"Yang Ji","doi":"10.1007/s43657-025-00286-x","DOIUrl":"https://doi.org/10.1007/s43657-025-00286-x","url":null,"abstract":"","PeriodicalId":74435,"journal":{"name":"Phenomics (Cham, Switzerland)","volume":"5 6","pages":"787-788"},"PeriodicalIF":6.2,"publicationDate":"2025-12-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12886628/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146168500","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Hierarchical Convolution-Based Multilayer Perception for Denoising 3D MRI to Enhance Diagnostic Confidence in Cerebral Small Vessel Disease.","authors":"Haibo Yang, Shengjie Zhang, Xiaoyang Han, Botao Zhao, Yan Ren, Xiao-Yong Zhang","doi":"10.1007/s43657-025-00219-8","DOIUrl":"https://doi.org/10.1007/s43657-025-00219-8","url":null,"abstract":"<p><p>Cerebral small vessel disease (CSVD) manifestations in magnetic resonance (MR) images play a pivotal role as essential indicators for accurate diagnosis. However, the presence of noise in MR images significantly degrades image quality, thus compromising the precision of lesion detection and disease diagnosis. Although deep learning with residual architectures has shown promise in MR denoising tasks, current methods face several challenges, such as issues with model convergence, limited generalization capabilities, and oversmoothing, all of which collectively hinder denoising performance. Our objective is to enhance denoising performance by introducing a new model named the hierarchical convolution-based multi-layer perceptron (HC-MLP), specifically designed to improve the diagnostic confidence of CSVD. Our HC-MLP framework comprises three primary components: 1) The inclusion of MLP modules mitigates bias caused by pure CNN models. 2) The straightforward structures of MLPs and convolutional neural networks (CNNs) simplify training and improve generalization. 3) The use of voxel-wise input and the integration of the residual MLP structure partially address the oversmoothing issue. Extensive experiments have been conducted on two public datasets (UK Biobank and the anatomical tracings of lesion after stroker (ATLAS)) and an external dataset to test the effectiveness of HC-MLP. A total of 120 brain MRI scans from the UK Biobank and 120 brain MRI scans from ATLAS with CSVD were randomly chosen for model training and testing. For external testing, all 29 subjects with various MRI features of CSVD were included. Peak signal-to-noise ratio (PSNR), structural similarity index measure (SSIM), and normalized mean squared error (NMSE) were used for model evaluation. The Mann-Whitney-Wilcoxon two-sided test was used for score comparisons. Furthermore, two senior radiologists scored the results of the denoising performance. The experimental results show that HC-MLP significantly outperforms several state-of-the-art denoising algorithms, achieving a substantial improvement in PSNR (6.91% increase on UK Biobank and 5.31% on ATLAS) and SSIM (3.67% increase on UK Biobank and 2.27% on ATLAS). The CSVD recovery results further illustrate the superior performance of HC-MLP. Moreover, the performance of HC-MLP has been confirmed by radiologists. The proposed HC-MLP not only achieves significant enhancements in denoising 3D MR images but also successfully restores key features of CSVD that may be compromised by simulated noise in MR images, thereby improving the diagnostic confidence of CSVD.</p><p><strong>Supplementary information: </strong>The online version contains supplementary material available at 10.1007/s43657-025-00219-8.</p>","PeriodicalId":74435,"journal":{"name":"Phenomics (Cham, Switzerland)","volume":"5 6","pages":"729-744"},"PeriodicalIF":6.2,"publicationDate":"2025-12-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12886629/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146168530","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Environmental Toxins and its Potential Influence on the Imbalance of Sex Hormone Homeostasis in Children and Adolescents.","authors":"Jieyu Liu, Yanhui Dong","doi":"10.1007/s43657-025-00247-4","DOIUrl":"https://doi.org/10.1007/s43657-025-00247-4","url":null,"abstract":"","PeriodicalId":74435,"journal":{"name":"Phenomics (Cham, Switzerland)","volume":"5 5","pages":"627-629"},"PeriodicalIF":6.2,"publicationDate":"2025-11-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12881228/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146144860","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Longitudinal Associations Between Metabolic Heterogeneity of Obesity and Electrocardiographic Phenotypes in Older Population.","authors":"Zhenqing Yang, Yinuo Tu, Bonan Ding, Ciyun Zhao, Zhiyu Cai, Jia Li, Lei Peng, Jingyun Zhang, Weicheng Wu, Xuehui Sun, Zuobing Chen, Yimin Zhu, Xiaofeng Wang, Xiaoyan Jiang, Zuyun Liu","doi":"10.1007/s43657-025-00225-w","DOIUrl":"https://doi.org/10.1007/s43657-025-00225-w","url":null,"abstract":"","PeriodicalId":74435,"journal":{"name":"Phenomics (Cham, Switzerland)","volume":"5 6","pages":"774-778"},"PeriodicalIF":6.2,"publicationDate":"2025-11-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12886708/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146168465","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Mendelian Randomization Combined with Bioinformatics Revealed Specific Allergy-Mediated Protective Mechanisms Against Renal Cell Carcinoma.","authors":"Zixuan Xing, Hao Lei, Yaohui Jiang, Shaobo Wu, Qijuan Zang, Sikai Qiu, Enrui Xie, Yuan Wang, Ning Gao, Yee Hui Yeo, Fanpu Ji, Zhengxiao Li","doi":"10.1007/s43657-025-00229-6","DOIUrl":"10.1007/s43657-025-00229-6","url":null,"abstract":"<p><p>There is evidence that allergic diseases are associated with carcinogenesis. According to translational and epidemiological data, it appears that different cancer types yield different associations. We investigated the relationship between allergic diseases and 28 cancers by Mendelian randomization. Quantitative trait locus analysis was utilized to determine genes expressed in kidney tissue that were affected by allergy-related loci. We further explored the underlying molecular mechanism between allergic diseases and renal cell carcinoma (RCC) with bioinformatics. Of the 28 cancers, evidence suggested that allergies specifically suppressed kidney cancer. Seventy single nucleotide polymorphisms associated with allergic diseases affected the expression of 134 genes in kidney tissue. These 134 genes were enriched in immune-related pathways represented by the major histocompatibility complex class II antigen presentation pathway. Among them, seven core genes were significantly positively correlated with T helper 2 cells. Allergic diseases specifically suppressed RCC through multiple immune pathways. Among them, the major histocompatibility complex class II antigen presentation pathway and T helper 2 cells were the most critical. Our study sheds light on the underlying mechanisms of allergic diseases and RCC and provides therapeutic targets for RCC.</p><p><strong>Supplementary information: </strong>The online version contains supplementary material available at 10.1007/s43657-025-00229-6.</p>","PeriodicalId":74435,"journal":{"name":"Phenomics (Cham, Switzerland)","volume":"5 5","pages":"577-589"},"PeriodicalIF":6.2,"publicationDate":"2025-11-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12881226/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146144839","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}