PaGenBase: A Pattern Gene Database for the Global and Dynamic Understanding of Gene Function

CORC > 厦门大学 > 信息技术－已发表论文

	PaGenBase: A Pattern Gene Database for the Global and Dynamic Understanding of Gene Function
	Pan, Jian-Bo ; Hu, Shi-Chang ; Shi, Dan ; Cai, Mei-Chun ; Li, Yin-Bo ; Zou, Quan ; Ji, Zhi-Liang ; Zou Q(邹权) ; Ji ZL(纪志梁)
刊名	http://dx.doi.org/10.1371/journal.pone.0080747
	2013
关键词	TISSUE-SPECIFIC GENES WEB-BASED TOOL HOUSEKEEPING GENES MICROARRAY DATA EXPRESSION IDENTIFICATION ATLAS RESOURCES MOUSE
英文摘要	Fundamental Research Funds for the Central Universities [2010121084]; Natural Science Foundation of China (NSFC) [31271405]; Pattern genes are a group of genes that have a modularized expression behavior under serial physiological conditions. The identification of pattern genes will provide a path toward a global and dynamic understanding of gene functions and their roles in particular biological processes or events, such as development and pathogenesis. In this study, we present PaGenBase, a novel repository for the collection of tissue-and time-specific pattern genes, including specific genes, selective genes, housekeeping genes and repressed genes. The PaGenBase database is now freely accessible at http://bioinf.xmu.edu.cn/PaGenBase/. In the current version (PaGenBase 1.0), the database contains 906,599 pattern genes derived from the literature or from data mining of more than 1,145,277 gene expression profiles in 1,062 distinct samples collected from 11 model organisms. Four statistical parameters were used to quantitatively evaluate the pattern genes. Moreover, three methods (quick search, advanced search and browse) were designed for rapid and customized data retrieval. The potential applications of PaGenBase are also briefly described. In summary, PaGenBase will serve as a resource for the global and dynamic understanding of gene function and will facilitate high-level investigations in a variety of fields, including the study of development, pathogenesis and novel drug discovery.
语种	英语
出版者	PUBLIC LIBRARY SCIENCE
内容类型	期刊论文
源URL	[http://dspace.xmu.edu.cn/handle/2288/92502]
专题	信息技术－已发表论文
推荐引用方式 GB/T 7714	Pan, Jian-Bo,Hu, Shi-Chang,Shi, Dan,et al. PaGenBase: A Pattern Gene Database for the Global and Dynamic Understanding of Gene Function[J]. http://dx.doi.org/10.1371/journal.pone.0080747,2013.
APA	Pan, Jian-Bo.,Hu, Shi-Chang.,Shi, Dan.,Cai, Mei-Chun.,Li, Yin-Bo.,...&纪志梁.(2013).PaGenBase: A Pattern Gene Database for the Global and Dynamic Understanding of Gene Function.http://dx.doi.org/10.1371/journal.pone.0080747.
MLA	Pan, Jian-Bo,et al."PaGenBase: A Pattern Gene Database for the Global and Dynamic Understanding of Gene Function".http://dx.doi.org/10.1371/journal.pone.0080747 (2013).