OUGENE： a disease associated over-expressed and under-expressed gene database

Gene over-expression or under-expression is closely associated with human diseases, which contributes to phenotypic variations and diversity. To our best knowledge, there is no single open specific resource available to provide the association information between gene over- or under-expression and v...

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Bibliographic Details
Published in:Science bulletin (Beijing) 2016-05, Vol.61 (10), p.752-754
Main Authors: Pan, Xiaoyong, Shen, Hong-Bin
Format: Article
Language:English
Subjects:
Chemistry/Food Science
Disease
Earth Sciences
Engineering
Gene over- and under-expression
Humanities and Social Sciences
Letter
Life Sciences
multidisciplinary
Physics
Science
Science (multidisciplinary)
Text mining
Web界面
专业数据库
人类疾病
基因数据库
表型变异
过度表达
过表达
金
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Summary:Gene over-expression or under-expression is closely associated with human diseases, which contributes to phenotypic variations and diversity. To our best knowledge, there is no single open specific resource available to provide the association information between gene over- or under-expression and various diseases. In this study, we presented a comprehensive disease-associated over- and under-expressed gene database （OUGene） based on our proposed text mining pipeline and several open curated databases. It contains total 41,269 unique associa- tions between 7,238 over- or under-expressed genes and 1,480 diseases, which are supported by 81,974 evidence sentences from 56,442 articles. The OUGene is compre- hensive and covers most important therapeutic areas. Meanwhile a new scoring system is designed to rank the associations based on benchmarking against hand-curated data. OUGene provides an easy-of-use web interface for researchers to analyze these data and visualize the associ- ated networks, which can give insights to the complex relationships between over- and under-expressed genes and diseases at a system level. It is available at www.csbio.sjtu. edu.cn/bioinf/OUGene/.
ISSN:2095-9273
2095-9281
DOI:10.1007/s11434-016-1059-1