MicroRNA-Seq Data Analysis Pipeline to Identify Blood Biomarkers for Alzheimer's Disease from Public Data.
MicroRNA-Seq Data Analysis Pipeline to Identify Blood Biomarkers for Alzheimer's Disease from Public Data.
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DOI：
10.4137/bmi.s25132
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发表时间：
2015
影响因子：
3.8
通讯作者：
Niida S
中科院分区：
文献类型：
--
作者：
Satoh J;Kino Y;Niida S
阿尔茨海默病（AD）是痴呆症的最常见原因，目前没有治愈性治疗。建立敏感和非侵入性的生物标志物，促进AD的早期诊断是至关重要的疾病修饰药物的有效管理。microRNA（miRNAs）介导许多靶基因的转录后抑制。miRNA表达的异常调节与AD发病机制有关，循环miRNA可作为AD的潜在生物标志物。然而，来自小RNA测序（RNA-Seq）的许多AD特异性miRNA的数据分析通常是费力的。为了鉴定AD的循环miRNA生物标志物，我们重新分析了一个公开的小RNA-Seq数据集，该数据集由48名AD患者和22名正常对照（NC）受试者的血液样本组成，通过一个简单的基于网络的miRNA数据分析管道，结合omiRas和DIANA miRPath。通过使用omiRas，我们鉴定了27种在两组之间差异表达的miRNA，包括在AD中上调的miR-26 b-3 p、miR-28- 3 p、miR-30 c-5 p、miR-30 d-5 p、miR-148 b-5 p、miR-151 a-3 p、miR-186- 5 p、miR-425- 5 p、miR-550 a-5 p、miR-1468、miR-4781- 3 p、miR-5001- 3 p，和miR-6513-3p，以及AD中let-7a-5p、let-7e-5p、let-7f-5p、let-7g-5p、miR-15a-5p、miR-17-3p、miR-29b-3p、miR-98-5p、miR-144-5p、miR-148a-3p、miR-502-3p、miR-660-5p、miR-1294和miR-3200-3p的下调。DIANA miRPath指出，在AD中可能下调的miRNA调节途径与神经元突触功能相关，而在AD中上调的miRNA调节途径与细胞存活和细胞通讯有关。简单的基于网络的miRNA数据分析管道帮助我们从复杂的小RNA-Seq数据中毫不费力地识别miRNA生物标志物和AD途径的候选者。
Alzheimer’s disease (AD) is the most common cause of dementia with no curative therapy currently available. Establishment of sensitive and non-invasive biomarkers that promote an early diagnosis of AD is crucial for the effective administration of disease-modifying drugs. MicroRNAs (miRNAs) mediate posttranscriptional repression of numerous target genes. Aberrant regulation of miRNA expression is implicated in AD pathogenesis, and circulating miRNAs serve as potential biomarkers for AD. However, data analysis of numerous AD-specific miRNAs derived from small RNA-sequencing (RNA-Seq) is most often laborious. To identify circulating miRNA biomarkers for AD, we reanalyzed a publicly available small RNA-Seq dataset, composed of blood samples derived from 48 AD patients and 22 normal control (NC) subjects, by a simple web-based miRNA data analysis pipeline that combines omiRas and DIANA miRPath. By using omiRas, we identified 27 miRNAs expressed differentially between both groups, including upregulation in AD of miR-26b-3p, miR-28–3p, miR-30c-5p, miR-30d-5p, miR-148b-5p, miR-151a-3p, miR-186–5p, miR-425–5p, miR-550a-5p, miR-1468, miR-4781–3p, miR-5001–3p, and miR-6513–3p and downregulation in AD of let-7a-5p, let-7e-5p, let-7f-5p, let-7g-5p, miR-15a-5p, miR-17–3p, miR-29b-3p, miR-98–5p, miR-144–5p, miR-148a-3p, miR-502–3p, miR-660–5p, miR-1294, and miR-3200–3p. DIANA miRPath indicated that miRNA-regulated pathways potentially downregulated in AD are linked with neuronal synaptic functions, while those upregulated in AD are implicated in cell survival and cellular communication. The simple web-based miRNA data analysis pipeline helps us to effortlessly identify candidates for miRNA biomarkers and pathways of AD from the complex small RNA-Seq data.