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Stratification of Gene Coexpression Patterns and GO Function Mining for a RNA-Seq Data Series
Joint Authors
Wu, Longyue
Fei, Yiping
Xu, Huafeng
Liu, Xiuhua
Ye, Xiangmei
Li, Xia
Zhao, Hui
Gong, Yonghui
Yang, Dongguang
Cao, Fenglin
Zhou, Jin
Source
Issue
Vol. 2014, Issue 2014 (31 Dec. 2014), pp.1-8, 8 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2014-05-19
Country of Publication
Egypt
No. of Pages
8
Main Subjects
Abstract EN
RNA-Seq is emerging as an increasingly important tool in biological research, and it provides the most direct evidence of the relationship between the physiological state and molecular changes in cells.
A large amount of RNA-Seq data across diverse experimental conditions have been generated and deposited in public databases.
However, most developed approaches for coexpression analyses focus on the coexpression pattern mining of the transcriptome, thereby ignoring the magnitude of gene differences in one pattern.
Furthermore, the functional relationships of genes in one pattern, and notably among patterns, were not always recognized.
In this study, we developed an integrated strategy to identify differential coexpression patterns of genes and probed the functional mechanisms of the modules.
Two real datasets were used to validate the method and allow comparisons with other methods.
One of the datasets was selected to illustrate the flow of a typical analysis.
In summary, we present an approach to robustly detect coexpression patterns in transcriptomes and to stratify patterns according to their relative differences.
Furthermore, a global relationship between patterns and biological functions was constructed.
In addition, a freely accessible web toolkit “coexpression pattern mining and GO functional analysis” (COGO) was developed.
American Psychological Association (APA)
Zhao, Hui& Cao, Fenglin& Gong, Yonghui& Xu, Huafeng& Fei, Yiping& Wu, Longyue…[et al.]. 2014. Stratification of Gene Coexpression Patterns and GO Function Mining for a RNA-Seq Data Series. BioMed Research International،Vol. 2014, no. 2014, pp.1-8.
https://search.emarefa.net/detail/BIM-512304
Modern Language Association (MLA)
Zhao, Hui…[et al.]. Stratification of Gene Coexpression Patterns and GO Function Mining for a RNA-Seq Data Series. BioMed Research International No. 2014 (2014), pp.1-8.
https://search.emarefa.net/detail/BIM-512304
American Medical Association (AMA)
Zhao, Hui& Cao, Fenglin& Gong, Yonghui& Xu, Huafeng& Fei, Yiping& Wu, Longyue…[et al.]. Stratification of Gene Coexpression Patterns and GO Function Mining for a RNA-Seq Data Series. BioMed Research International. 2014. Vol. 2014, no. 2014, pp.1-8.
https://search.emarefa.net/detail/BIM-512304
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-512304