PANTHER pathway: an ontology-based pathway database coupled with data analysis tools.
PANTHER pathway: an ontology-based pathway database coupled with data analysis tools.
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DOI：
10.1007/978-1-60761-175-2_7
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发表时间：
2009
期刊：
影响因子：
--
通讯作者：
Thomas P
中科院分区：
文献类型：
--
作者：
Mi H;Thomas P
各种模式生物的全基因组序列的可得性以及越来越多的实验数据和文献刺激了生物研究系统方法的演变。研究生物通路网络的计算工具和算法的开发在帮助分析研究数据方面取得了巨大进展。路径数据库成为这种方法的一个组成部分。本章首先讨论了生物学知识是如何表示的，特别是本体论或标准在系统生物学研究中的重要性。接下来，我们以PANTHER Pathway为例来说明本体和标准如何在数据建模、数据输入和数据显示中发挥作用。最后，我们描述了这种系统的使用。我们还描述了利用PANTHER通路信息来分析基因表达实验数据的计算工具。
The availability of whole genome sequences from various model organisms and increasing experimental data and literatures stimulated the evolution of a systems approach for biological research. The development of computational tools and algorithms to study biological pathway networks has made great progress in helping analyze research data. Pathway databases become an integral part of such an approach. This chapter first discusses how biological knowledge is represented, particularly the importance of ontologies or standards in systems biology research. Next, we use PANTHER Pathway as an example to illustrate how ontologies and standards play a role in data modeling, data entry, and data display. Last, we describe the usage of such systems. We also describe the computational tools that utilize PANTHER pathway information to analyze gene expression experimental data.