研究动态
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ExomiRHub:用于托管和分析人类疾病相关细胞外 microRNA 转录组数据的综合数据库。

ExomiRHub: A comprehensive database for hosting and analyzing human disease-related extracellular microRNA transcriptomics data.

发表日期:2024 Dec
作者: Yang Liu, Zhuochao Min, Jing Mo, Zhen Ju, Jianliang Chen, Weiling Liang, Lantian Zhang, Hanguang Li, Godfrey Chi-Fung Chan, Yanjie Wei, Wenliang Zhang
来源: Computational and Structural Biotechnology Journal

摘要:

不同实验室生成的细胞外 microRNA (miRNA) 表达数据表现出异质性,这给没有生物信息学专业知识的生物学家带来了挑战。为了解决这个问题,我们推出了 ExomiRHub (http://www.biomedical-web.com/exomirhub/),这是一个专为生物学家设计的用户友好型数据库。该数据库包含与 112 种疾病表型、62 种治疗方法和 24 种基因型相关的 191 个人类细胞外 miRNA 表达数据集,涵盖 29,198 种和 23 种样本类型。 ExomiRHub 还集成了癌症基因组图谱中 156 种癌症亚型的 16,012 个 miRNA 转录组。 ExomiRHub 中的所有数据都经过进一步标准化和注释整理。该平台提供25种分析功能,包括差异表达、共表达、加权基因共表达网络分析(WGCNA)、特征选择和功能富集,使用户能够选择样本、定义组和自定义分析参数。此外,ExomiRHub 提供网络服务,允许生物学家分析他们上传的 miRNA 表达数据。另外还开发了四种工具来评估 miRNA 和 miRNA 变异的功能和靶点。通过 ExomiRHub,我们鉴定了与血管生成相关的细胞外 miRNA 生物标志物,用于监测神经胶质瘤的进展,证明了其显着加速细胞外 miRNA 生物标志物发现的潜力。© 2024 作者。
Extracellular microRNA (miRNA) expression data generated by different laboratories exhibit heterogeneity, which poses challenges for biologists without bioinformatics expertise. To address this, we introduce ExomiRHub (http://www.biomedical-web.com/exomirhub/), a user-friendly database designed for biologists. This database incorporates 191 human extracellular miRNA expression datasets associated with 112 disease phenotypes, 62 treatments, and 24 genotypes, encompassing 29,198 and 23 sample types. ExomiRHub also integrates 16,012 miRNA transcriptomes of 156 cancer subtypes from The Cancer Genome Atlas. All the data in ExomiRHub were further standardized and curated with annotations. The platform offers 25 analytical functions, including differential expression, co-expression, Weighted Gene Co-Expression Network Analysis (WGCNA), feature selection, and functional enrichment, enabling users to select samples, define groups, and customize parameters for analyses. Moreover, ExomiRHub provides a web service that allows biologists to analyze their uploaded miRNA expression data. Four additional tools were developed to evaluate the functions and targets of miRNAs and miRNA variations. Through ExomiRHub, we identified extracellular miRNA biomarkers associated with angiogenesis for monitoring glioma progression, demonstrating its potential to significantly accelerate the discovery of extracellular miRNA biomarkers.© 2024 The Authors.