Multi-omics enrichment analysis using the GeneTrail2 web service
Multi-omics enrichment analysis using the GeneTrail2 web service
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DOI：
10.1093/bioinformatics/btv770
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发表时间：
2016-05-15
期刊：
影响因子：
5.8
通讯作者：
Lenhof, Hans-Peter
中科院分区：
文献类型：
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作者：
Stoeckel, Daniel;Kehl, Tim;Lenhof, Hans-Peter
动机：基因集分析彻底改变了高通量转录组数据的解释。如今，随着对同一样本进行多组学测量的全面研究，需要强大的工具来综合分析多组学数据集。结果：在这里，我们介绍了GeneTrail 2，这是一项网络服务，可以综合分析转录组学、miRNomic、基因组学和蛋白质组学数据集。它提供了多种统计测试，大量预定义的参考集，以及全面的生物分类集合，并可以直接比较计算结果。我们使用GeneTrail 2来探讨肾母细胞瘤的致病机制。我们不仅成功地揭示了可能导致胚基亚型肿瘤恶性程度的信号级联反应，而且还确定了具有不良预后的肾母细胞瘤的潜在生物标志物。所提出的用例表明，GeneTrail 2非常适合综合组学数据的综合分析，并可能有助于阐明癌症和其他疾病中复杂的致病机制。
Motivation: Gene set analysis has revolutionized the interpretation of high-throughput transcriptomic data. Nowadays, with comprehensive studies that measure multiple - omics from the same sample, powerful tools for the integrative analysis of multi-omics datasets are required.Results: Here, we present GeneTrail2, a web service allowing the integrated analysis of transcriptomic, miRNomic, genomic and proteomic datasets. It offers multiple statistical tests, a large number of predefined reference sets, as well as a comprehensive collection of biological categories and enables direct comparisons between the computed results. We used GeneTrail2 to explore pathogenic mechanisms of Wilms tumors. We not only succeeded in revealing signaling cascades that may contribute to the malignancy of blastemal subtype tumors but also identified potential biomarkers for nephroblastoma with adverse prognosis. The presented use-case demonstrates that GeneTrail2 is well equipped for the integrative analysis of comprehensive -omics data and may help to shed light on complex pathogenic mechanisms in cancer and other diseases.