使用念珠菌基因组数据库。
Using the Candida Genome Database.
作者信息
Skrzypek Marek S, Binkley Jonathan, Sherlock Gavin
机构信息
Department of Genetics, Stanford University, Stanford, CA, USA.
出版信息
Methods Mol Biol. 2018;1757:31-47. doi: 10.1007/978-1-4939-7737-6_3.
Abstract
Studying Candida biology requires access to genomic sequence data in conjunction with experimental information that together provide functional context to genes and proteins, and aid in interpreting newly generated experimental data. The Candida Genome Database (CGD) curates the Candida literature, and integrates functional information about Candida genes and their products with a set of analysis tools that facilitate searching for sets of genes and exploring their biological roles. This chapter describes how the various types of information available at CGD can be searched, retrieved, and analyzed. Starting with the guided tour of the CGD Home page and Locus Summary page, this unit shows how to navigate the various assemblies of the C. albicans genome, how to use Gene Ontology tools to make sense of large-scale data, and how to access the microarray data archived at CGD, as well as visualize high-throughput sequencing data through the use of JBrowse.
摘要
研究念珠菌生物学需要获取基因组序列数据以及实验信息，这些信息共同为基因和蛋白质提供功能背景，并有助于解释新生成的实验数据。念珠菌基因组数据库（CGD）整理念珠菌文献，并将关于念珠菌基因及其产物的功能信息与一组分析工具整合在一起，这些工具便于搜索基因集并探索其生物学作用。本章描述了如何搜索、检索和分析CGD中可用的各种类型的信息。从CGD主页和基因座总结页面的导览开始，本单元展示了如何浏览白色念珠菌基因组的各种组装体，如何使用基因本体论工具来理解大规模数据，以及如何访问CGD存档的微阵列数据，以及如何通过使用JBrowse可视化高通量测序数据。
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