An algorithm for network motif discovery in biological networks

作者：Qin, Guimin; Gao, Lin^*

来源：International Journal of Data Mining and Bioinformatics, 2012, 6(1): 1-16.

DOI：10.1504/IJDMB.2012.045533

• network motifs
• biological networks
• PPI networks
• transcriptional regulatory networks

Network motif discovery is a key problem in analysis of biological networks. In this paper, we present an efficient algorithm for detecting consensus motifs. First, we extend subgraph searching algorithm Enumerate Subgraphs (ESU) to efficiently search non-treelike subgraphs of which the probability of occurrence in random networks is small. Then, we classify isomorphic subgraphs into different groups. Finally, we use hierarchical clustering method to cluster subgraphs, and derive a consensus motif from the clusters. Our algorithm is applied to the Protein-Protein Interaction (PPI) networks and the transcriptional regulatory networks of E. coli and S. cerevisiae. The experiment results show that the algorithm can efficiently discover motifs, which are consistent with current biology knowledge. And, it can also detect several consensus motifs with a given size, which may help biologists go further into cellular process.

• 出版日期2012
• 单位西安电子科技大学