Predicting Arabidopsis thaliana gene function by transitiving co-expression in shortest-path | 用最短路径传递共表达预测拟南芥基因功能
2010
Shi Fengli, Shanghai Normal University , Shanghai (China), College of Information, Mechanical and Electrical Engineering | Huang Jifeng, Shanghai Normal University , Shanghai (China), College of Information, Mechanical and Electrical Engineering
The present paper predicted the function of unknow genes by analyzing the co-expression data of Arabidopsis thaliana from biological pathway based on the shortest-path algorithm. This paper proposed that transitive co-expression among genes can be used as an important attribute to link genes of the same biological pathway. The genes from the same biological pathway with similar functions are strongly correlated in expression. Moreover, the function of unknown genes can be predicted by the known genes where they are strongly correlated in expression lying on the same shortest-path from the biological pathway. Analyzing the Arabidopsis thaliana from the biological pathway, this study showed that this method can reliably reveal function of the unknown Arabidopsis thaliana genes and the approach of predicting gene function by transitiving co-expression in shortest-path is feasible and effective.
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