Department of Microbiology & Immunology, Institute for Human Infections & Immunity, University of Texas Medical Branch, Galveston, TX 77555, USA.
Viruses. 2011 May;3(5):613-9. doi: 10.3390/v3050613. Epub 2011 May 12.
The continuing use of high-throughput assays to investigate cellular responses to infection is providing a large repository of information. Due to the large number of differentially expressed transcripts, often running into the thousands, the majority of these data have not been thoroughly investigated. Advances in techniques for the downstream analysis of high-throughput datasets are providing additional methods for the generation of additional hypotheses for further investigation. The large number of experimental observations, combined with databases that correlate particular genes and proteins with canonical pathways, functions and diseases, allows for the bioinformatic exploration of functional networks that may be implicated in replication or pathogenesis. Herein, we provide an example of how analysis of published high-throughput datasets of cellular responses to hemorrhagic fever virus infection can generate additional functional data. We describe enrichment of genes involved in metabolism, post-translational modification and cardiac damage; potential roles for specific transcription factors and a conserved involvement of a pathway based around cyclooxygenase-2. We believe that these types of analyses can provide virologists with additional hypotheses for continued investigation.
高通量分析方法在感染细胞反应的研究中持续应用，为我们提供了大量的信息资源。然而，由于差异表达转录本的数量庞大，通常有成千上万，这些数据中的大多数尚未得到充分研究。高通量数据集下游分析技术的进步，为进一步研究提供了更多生成假设的方法。大量的实验观察结果，结合将特定基因和蛋白质与经典途径、功能和疾病相关联的数据库，使得可以对可能涉及复制或发病机制的功能网络进行生物信息学探索。本文中，我们提供了一个示例，说明如何分析已发表的细胞对出血热病毒感染反应的高通量数据集，以生成额外的功能数据。我们描述了参与代谢、翻译后修饰和心脏损伤的基因的富集；特定转录因子的潜在作用以及围绕环氧化酶-2 的途径的保守参与。我们相信，这类分析可以为病毒学家提供更多的假设，以进行进一步的研究。
