Phenomics (Cham, Switzerland)最新文献_第5页

Mendelian Randomization Combined with Bioinformatics Revealed Specific Allergy-Mediated Protective Mechanisms Against Renal Cell Carcinoma. 孟德尔随机结合生物信息学揭示特异性过敏介导的肾细胞癌保护机制。

IF 6.2

Phenomics (Cham, Switzerland) Pub Date : 2025-11-03 eCollection Date: 2025-10-01 DOI: 10.1007/s43657-025-00229-6

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

{"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":"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.Supplementary information: The online version contains supplementary material available at 10.1007/s43657-025-00229-6.","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}

引用次数: 0

New Highlights: The Microbiome of Bronchoalveolar Lavage Fluid Predicts the Prognosis of Lung Cancer. 新亮点：支气管肺泡灌洗液微生物组预测肺癌预后。

IF 6.2

Phenomics (Cham, Switzerland) Pub Date : 2025-10-31 eCollection Date: 2025-10-01 DOI: 10.1007/s43657-025-00222-z

Qiuli Xu, Tangfeng Lv

引用次数: 0

Treating Metabolic Syndrome: P4 Medicine Meets Functional Medicine. 治疗代谢综合征：P4医学与功能医学。

IF 6.2

Phenomics (Cham, Switzerland) Pub Date : 2025-10-14 eCollection Date: 2025-10-01 DOI: 10.1007/s43657-025-00227-8

Jeffrey Bland

引用次数: 0

Nuclear Magnetic Resonance-Based Metabolomics Reveals Systemic Metabolic Disarray in the Transition from Acute Kidney Injury To Chronic Kidney Disease. 基于核磁共振的代谢组学揭示了急性肾损伤向慢性肾病转变过程中的全身性代谢紊乱。

IF 6.2

Phenomics (Cham, Switzerland) Pub Date : 2025-08-18 eCollection Date: 2025-08-01 DOI: 10.1007/s43657-025-00276-z

Lingxiao Wang, Xiuru Wang, Tingxiao Zou, Feng Su, Ying Yao, Jinping Gu

引用次数: 0

Immunophenotyping of Mouse Colonic Unconventional T Cells by Mapping Cell Phenomics With 22-Color Flow Cytometry Assays. 利用22色流式细胞术定位细胞表型学对小鼠结肠非常规T细胞进行免疫分型。

IF 6.2

Phenomics (Cham, Switzerland) Pub Date : 2025-08-11 eCollection Date: 2025-10-01 DOI: 10.1007/s43657-025-00237-6

Lehan Pan, Chunting Shen, Shiyang Huang, Yingchi Yang, Zhongtao Zhang, Dan Tian

{"title":"Immunophenotyping of Mouse Colonic Unconventional T Cells by Mapping Cell Phenomics With 22-Color Flow Cytometry Assays.","authors":"Lehan Pan, Chunting Shen, Shiyang Huang, Yingchi Yang, Zhongtao Zhang, Dan Tian","doi":"10.1007/s43657-025-00237-6","DOIUrl":"10.1007/s43657-025-00237-6","url":null,"abstract":"The intestinal epithelium is continually exposed to food-derived antigens and microbiota. This continual exposure requires a delicate immune homeostasis for food tolerance and protection against infection. Unconventional T lymphocytes, including γδT cells, Natural killer T (NKT) cells, Mucosal-Associated Invariant T (MAIT) cells, and Double-Negative T (DNT) cells, typically reside in the mucosal tissue, such as the colon. These cells play crucial roles in maintaining the integrity of the mucosal barrier and immune homeostasis through cytokine secretion and direct cell-mediated effects. Understanding the proportions and functional status of unconventional T lymphocytes in the colon is crucial for elucidating disease mechanisms. In this study, we developed a 22-color flow cytometry panel for comprehensive immunophenotyping of unconventional T lymphocytes in the murine colon. Our optimized protocol included antibody titration and customized gating strategies. We identified distinct populations of unconventional T lymphocytes, including γδT cells, NKT cells and DNT cells, and compared them with conventional T lymphocyte subsets (CD4+ T, CD8αα+ T, and CD8αβ+ T). We assessed their proliferation, cytotoxicity, cytokine production, and immune checkpoint molecule expression. Inhibitory receptor levels on intraepithelial and lamina propria unconventional T lymphocytes differed, suggesting distinct local environments and regulatory mechanisms. Our findings elucidate the status and function characteristics of unconventional T cells in colonic tissues, providing insights for mechanistic studies and the development of therapies for gastrointestinal diseases.Supplementary information: The online version contains supplementary material available at 10.1007/s43657-025-00237-6.","PeriodicalId":74435,"journal":{"name":"Phenomics (Cham, Switzerland)","volume":"5 5","pages":"551-564"},"PeriodicalIF":6.2,"publicationDate":"2025-08-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12881235/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146144841","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}

引用次数: 0

A Simpler, More Convenient and More Comfortable Approach for Treating Multiple Keratinocytic Carcinoma. 一种更简单、更方便、更舒适的治疗多发性角化细胞癌的方法。

IF 6.2

Phenomics (Cham, Switzerland) Pub Date : 2025-08-07 eCollection Date: 2025-06-01 DOI: 10.1007/s43657-025-00220-1

Zixi Jiang, Xin Liu, Lanyuan Peng, Nianzhou Yu, Yan Wang, Wenbo Bu, Shuang Zhao, Minghao Jiang, Dan Jian, Lisha Wu

引用次数: 0

Baseline Plasma GPX3 Level Predicts Efficacy of Insulin-Sensitization Drug Chiglitazar in Type 2 Diabetes. 血浆GPX3基线水平预测胰岛素增敏药物齐列他治疗2型糖尿病的疗效

IF 6.2

Phenomics (Cham, Switzerland) Pub Date : 2025-07-29 eCollection Date: 2025-06-01 DOI: 10.1007/s43657-025-00266-1

Zehui Cao, Haonan Chen, Qiaochu Chen, Chen Ding, Leming Shi, Yuanting Zheng

引用次数: 0

Retinol-driven Gene Signatures Predict Lung Adenocarcinoma Outcomes and Highlight PAICS as a Therapeutic Opportunity. 视黄醇驱动的基因特征预测肺腺癌的预后，并强调PAICS是一个治疗机会。

IF 6.2

Phenomics (Cham, Switzerland) Pub Date : 2025-07-23 eCollection Date: 2025-10-01 DOI: 10.1007/s43657-025-00223-y

Guangyao Shan, Binyang Pan, Yongxing Zhang, Shencheng Ren, Zhaolin Zheng, Yunyi Bian, Guangyu Yao, Hong Fan

{"title":"Retinol-driven Gene Signatures Predict Lung Adenocarcinoma Outcomes and Highlight PAICS as a Therapeutic Opportunity.","authors":"Guangyao Shan, Binyang Pan, Yongxing Zhang, Shencheng Ren, Zhaolin Zheng, Yunyi Bian, Guangyu Yao, Hong Fan","doi":"10.1007/s43657-025-00223-y","DOIUrl":"10.1007/s43657-025-00223-y","url":null,"abstract":"Retinol, a pivotal regulator of cellular growth and apoptosis, has garnered substantial attention for its intricate involvement in cancer development. To explore Vitamin A's impact on lung adenocarcinoma (LUAD), we utilized comprehensive datasets from The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO) to dissect the intricate role of retinol in cancer progression. The unsupervised clustering analysis, grounded on retinol metabolism gene sets, divided patients into two distinct clusters, with cluster 1 exhibiting significantly inferior survival outcomes. Through differential analysis, we uncovered 349 differentially mutated and 394 differentially expressed genes between these clusters. Leveraging these discoveries, we built a seven-gene signature model that precisely predicted poorer survival for patients with a higher risk score, which was subsequently validated in four independent GEO cohorts, demonstrating its robustness and reliability. Our drug sensitivity analysis further revealed that high-risk patients were more susceptible to gefitinib and erlotinib. Notably, leveraging gene dependency scores and RNA-seq data from LUAD cell lines, we identified Phosphoribosylaminoimidazole Carboxylase And Phosphoribosylaminoimidazolesuccinocarboxamide Synthase (PAICS) as a potential therapeutic target. Single-RNA sequencing confirmed PAICS's predominant expression in cancer cells, and functional assays underscored its oncogenic role in promoting cell proliferation, migration, and invasion. These novel findings offer profound insights into potential therapeutic avenues for LUAD patients with poor prognoses, paving the way for future research endeavors.Supplementary information: The online version contains supplementary material available at 10.1007/s43657-025-00223-y.","PeriodicalId":74435,"journal":{"name":"Phenomics (Cham, Switzerland)","volume":"5 5","pages":"535-550"},"PeriodicalIF":6.2,"publicationDate":"2025-07-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12881200/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146144936","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}

引用次数: 0

Association Between Primary Dysmenorrhea and Mental Health Traits: A Study Based on Multi-Phenotype Correlation Network and Mendelian Randomization Analysis in Female College Students. 女大学生原发性痛经与心理健康特征的关系：基于多表型相关网络和孟德尔随机化分析的研究

IF 6.2

Phenomics (Cham, Switzerland) Pub Date : 2025-07-09 eCollection Date: 2025-10-01 DOI: 10.1007/s43657-024-00213-6

Huiting Jiangzhou, Hanpeng Xu, Yanqin Wen, Zeyi Guan, Yang Zheng, Xuemin Jian, Weichen Song, Aamir Fahira, Jinmai Zhang, Qing Zhang, Ying Zhao, Manfei Zhang, Jianhua Chen, Zhiqiang Li, Zhuo Wang, Yongyong Shi

{"title":"Association Between Primary Dysmenorrhea and Mental Health Traits: A Study Based on Multi-Phenotype Correlation Network and Mendelian Randomization Analysis in Female College Students.","authors":"Huiting Jiangzhou, Hanpeng Xu, Yanqin Wen, Zeyi Guan, Yang Zheng, Xuemin Jian, Weichen Song, Aamir Fahira, Jinmai Zhang, Qing Zhang, Ying Zhao, Manfei Zhang, Jianhua Chen, Zhiqiang Li, Zhuo Wang, Yongyong Shi","doi":"10.1007/s43657-024-00213-6","DOIUrl":"10.1007/s43657-024-00213-6","url":null,"abstract":"Primary dysmenorrhea (PDM) is a common cyclic menstrual pain that significantly affects the quality of life for women. Several epidemiological studies have suggested a potential association between PDM and mental health traits, including stress, depression, and anxiety. However, there is a lack of systematic investigation into whether a causal relationship exists between PDM and mental health phenotypes compared to other physical phenotypes. In this study, we conducted a large-scale phenome study on a cohort of 7401 young female Chinese college students to explore the association between PDM and various physical and mental health phenotypes. Using a multi-phenotype correlation network model, we discovered that the correlation between the PDM phenotypes and mental health phenotypes was the most dominant among the complex inter-connections across different categories of phenotypes. Furthermore, employing a two-sample Mendelian randomization analysis, we systematically elucidated the genomic-level impact of PDM on the mental health traits of young women. Specifically, we identified an increased risk of depression and anxiety associated with PDM, potentially influenced by several Single-nucleotide polymorphism (SNP) variants such as ZMIZ1, DIO1, GRIK4 and RBFOX1. This study offers valuable insights into the genetic mechanism through which dysmenorrhea impacts mental health, which contributes to a better understanding of the comprehensive management of PDM and its associated psychological challenges.Supplementary information: The online version contains supplementary material available at 10.1007/s43657-024-00213-6.","PeriodicalId":74435,"journal":{"name":"Phenomics (Cham, Switzerland)","volume":"5 5","pages":"502-517"},"PeriodicalIF":6.2,"publicationDate":"2025-07-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12881193/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146144780","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}

引用次数: 0

Associations Between Dietary Habits, Oral Microbiota, and Dental Caries in Adolescents. 青少年饮食习惯、口腔微生物群和龋齿之间的关系

IF 6.2

Phenomics (Cham, Switzerland) Pub Date : 2025-07-08 eCollection Date: 2025-12-01 DOI: 10.1007/s43657-024-00208-3

Haiyan Yue, Pei Shen, Qiumin Huang, Shuchun Lin, Jie Shen, Yetong Wang, Zhonghan Sun, Xinhe Qi, Yuzhou Jiang, Changzheng Yuan, Duohong Zou, Yan Zheng, Chi Yang

{"title":"Associations Between Dietary Habits, Oral Microbiota, and Dental Caries in Adolescents.","authors":"Haiyan Yue, Pei Shen, Qiumin Huang, Shuchun Lin, Jie Shen, Yetong Wang, Zhonghan Sun, Xinhe Qi, Yuzhou Jiang, Changzheng Yuan, Duohong Zou, Yan Zheng, Chi Yang","doi":"10.1007/s43657-024-00208-3","DOIUrl":"https://doi.org/10.1007/s43657-024-00208-3","url":null,"abstract":"Suboptimal dietary habits, such as excessive consumption of sugary foods and beverages, have been associated with a higher risk of dental caries. While known cariogenic species enrichment in the oral microbiome correlating with dental caries, the complex interactions between dietary habits, the oral microbiota, and dental caries among adolescents remain underexplored. Here, we examined the comprehensive associations between dietary habits, oral microbiota, and dental caries among 421 adolescents (mean age: 12.9 years, 28% having dental caries). The dietary data were collected via a food frequency questionnaire, dental health was examined by a skilled dentist, and the saliva microbiota was profiled by 16S ribosomal RNA sequencing. Significant difference in the oral microbial composition was observed between participants with and without dental caries (p-value < 0.05), which was replicated in an external adult population (n = 580). The relative abundances of 19 genera were associated with dental caries in adolescents independent of gender (all FDR-adjusted p-values < 0.20). For example, dental caries was linked with a higher abundance of Prevotella and Veillonella, both of which were also enriched in higher consumer of sugary food and beverage. In mediation analysis, certain caries-related genera, including Staphylococcus and Paludibacteraceae F0058, might partially mediate the associations between dietary habits and dental caries (p-mediation < 0.05). This research highlighted the role of oral microbiota in the association between dietary intakes and dental caries and may explain the potential mechanisms by which diet affects dental caries.Supplementary information: The online version contains supplementary material available at 10.1007/s43657-024-00208-3.","PeriodicalId":74435,"journal":{"name":"Phenomics (Cham, Switzerland)","volume":"5 6","pages":"633-645"},"PeriodicalIF":6.2,"publicationDate":"2025-07-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12886673/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146168409","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}

引用次数: 0