GLYCOBROWSER: A TOOL FOR CONTEXTUAL VISUALIZATION OF BIOL DATA & PATHWAYS

这个子项目是利用资源的许多研究子项目之一。 由NIH/NCRR资助的中心拨款提供。对子项目的主要支持 子项目的首席调查员可能是由其他来源提供的， 包括美国国立卫生研究院的其他来源。为子项目列出的总成本可能 表示该子项目使用的中心基础设施的估计数量， 不是由NCRR赠款提供给次级项目或次级项目工作人员的直接资金。 只有为血糖科学家提供灵活的界面，允许他们以一种有直觉的格式可视化这些知识，他们才能有效地利用嵌入我们本体论中的形式化知识。本体论本身由节点和边组成，它们的含义对于糖科学学家来说可能并不明显。为了有用，这些信息必须以更熟悉的格式呈现。我们通过开发GlycoBrowser来满足这一需求，GlycoBrowser是一种用于糖组学领域的本体信息可视化的工具。GlycoBrowser利用了GlycoVault的功能，以及其他几项技术，包括RDF(http://www.w3.org/RDF/)，AJAX(http://developers.sun.com/ajax/)，JAVASRIPT，布拉姆斯等)，以一种对糖生物学家直观的方式表示结构信息，并将这些信息与实验数据(糖组学、蛋白质组学和转录组分析)联系起来。GycoBrowser提供了葡聚糖生物合成途径和相关实验数据的图形显示。使用功能性糖链联盟(CFG)认可的标准表示法，在飞行中呈现葡聚糖。GlycoBrowser包括一个强大而灵活的图形界面，包括用于从Glyco本体中表示的规范组件构建多糖结构的方法。例如，GlycoBrowser支持呈现代谢途径的更大片段，相关实验数据(如各种糖链的丰度和各种糖基转移酶编码基因的转录水平)显示在该途径的下方。

This subproject is one of many research subprojects utilizing the resources provided by a Center grant funded by NIH/NCRR. Primary support for the subproject and the subproject's principal investigator may have been provided by other sources, including other NIH sources. The Total Cost listed for the subproject likely represents the estimated amount of Center infrastructure utilized by the subproject, not direct funding provided by the NCRR grant to the subproject or subproject staff. Glycoscientists can only make efficient use of the formalized knowledge embedded in our ontologies if they are provided with flexible interfaces that allow them to visualize this knowledge in a format that makes intuitive sense. The ontology itself consists of nodes and edges, whose meanings may not be obvious to the glycoscientist. To be useful, this information must be presented in a more familiar format. We addressed this need by developing GlycoBrowser, a tool for the visualization of ontological information in the glycomics domain. GlycoBrowser leverages the capabilities of GlycoVault, along with several other technologies, including RDF (http://www.w3.org/RDF/), AJAX (http://developers.sun.com/ajax/), Javascript, BRAHMS, etc. to represent structural information in a way that is intuitive for glycobiologists and to link this information to experimental data (glycomics, proteomics, and transcriptomics analyses). GycoBrowser provides a graphical display of glycan biosynthetic pathways and associated experimental data. Glycans are rendered "on the fly" using the standard representation endorsed by the Consortium for Functional Glycomics (CFG). GlycoBrowser include a powerful and flexible graphical interface, including methods for building glycan structures from canonical components that are represented in the GlycO ontology. For example, GlycoBrowser supports rendering of a larger segment of the metabolic pathway and relevant experimental data (such as the abundances of the various glycans and the transcript levels for various glycosyl transferase-encoding genes) are shown below the pathway.