New Bioinformatics Tools For Analyzing Immunological Data

无论以任何标准衡量，免疫系统都是复杂的。随着系统中组件的数量以及组件之间的相互作用 随着组件的增加，我们完全理解系统的能力显着下降。主要是与人类相比 对于计算机来说，在记忆、搜索和构建多成分、多尺度图像等任务上表现不佳。的 需要将我们的知识从自由文本中“解放出来”，并将其放入计算机系统中，该系统将记住我们的知识， 允许轻松搜索和可视化我们对免疫系统的理解是显而易见的。利用天然 语言处理来表示科学文献中的分子发现，以及网络可视化的使用 两者都对生物学产生了明显的影响。在这里，我们计划构建一个使用这两种技术的新信息学工具 代表细胞、免疫过程、分泌的细胞因子、表达的转录本和 磷酸化信号蛋白，称为 ImuuneXpresso。然后我们将该工具应用于多种类型的分子 在整个计划中进行的测量，以表明流感疫苗无反应的细胞原因。我们的工具 将可供该计划内的调查人员进行 Beta 测试，并发布给一般社区。

The immune system, by any standard is complex. As the number of components in a system and interactions between components grows, our ability to fully comprehend the system diminishes significantly. Principally, humans in comparison to computers, do poorly in tasks such as memorizing, searching and constructing multi-component, multi-scale images. The need to "free our knowledge" from free text, and place it in a computer system which will memorize our knowledge, allow for easy searching and visualization of our understanding of the immune system is apparent. The use of natural language processing to represent molecular findings from the scientific literature, and the use of network visualization have both made a clear impact across biology. Here, we plan to build a new informatics tool that uses both of these techniques to represent the complex network between cells, immunological processes, secreted cytokines, expressed transcripts, and phosphorylated signaling proteins, called ImuuneXpresso. We will then apply this tool to the multiple type of molecular measurements made throughout this program, to suggest the cellular cause of influenza vaccine non-response. Our tools will be available for beta tested to investigators within this program and released to the general community.