Analysis of Gene Logic Networks for Arabidopsis

作者：Su, Yansen; Wang, Shudong; Li, Eryan; Song, Tao; Yu, Hui; Meng, Dazhi^*

来源：Current Bioinformatics, 2013, 8(2): 244-252.

DOI：10.2174/1574893611308020012

• Arabidopsis
• gene network
• high-order logic
• network dynamics
• network structure
• systems biology

External stimuli may activate the stress response in Arabidopsis thaliana. The molecules which play important roles in the stress response have been widely studied. However, the interactions, especially logic interactions, among these molecules, need to be studied. In this paper, logic networks are constructed based on gene expression profiles of Arabidopsis under the normal condition and four different stimuli conditions, respectively. It is found that the distribution of different types of 2-order logics in the gene logic network under the normal condition is different from the others. Furthermore, the logic networks of genes which play important roles are constructed and their dynamics are simulated. It is then observed that the number of attractors in the logic network for Arabidopsis under the normal condition is less than those under four external stimuli. It is also observed that the number of attractors with large attraction domain in the logic network for Arabidopsis under the normal condition is greater than those under four external stimuli. The results show that the distribution of different types of 2-order logics and the number of attractors clearly distinguish logic network under the normal condition from those under external stimuli conditions. Our studies will provide the theoretical basis for experimental studies on the stress response of Arabidopsis.

• 单位
  华中科技大学; 北京工业大学; 山东科技大学