Characterize the relationship between essential and TATA-containing genes for S. cerevisiae by network topologies in the perturbation sensitivity network.
Essential genes are those that are indispensable for the survival and propagation of an organism. TATA-containing genes are associated with responses to various stresses and are highly regulated. Although both essential genes and TATA genes are very important in the function of biological systems, their relationship remains unclear because they have typically been researched independently. In this study, to investigate the relationship between essential genes and TATA genes, S. cerevisiae genes were classified as: essential TATA-containing, non-essential TATA-containing, essential non-TATA, and non-essential non-TATA genes. Network-based methods were applied to analyze these four gene categories in the S. cerevisiae perturbation sensitivity (PS) network, which was created from the transcriptional profiling of hundreds of different gene disruptions. All of the topological properties were found to be statistically discriminative among the four gene categories, and the non-essential TATA-containing genes had the most important roles in the yeast PS network.
College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, China. Electronic address: yanglei_hmu@163.com.
Lei
L
Yang
College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, China.
Shiyuan
S
Wang
College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, China.
Meng
M
Zhou
College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, China.
Xiaowen
X
Chen
The Key Laboratory of Mammalian Reproductive Biology and Biotechnology of the Ministry of Education, Inner Mongolia University, Hohhot 010021, China. Electronic address: yczuo@imu.edu.cn.
Yongchun
Y
Zuo
College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, China. Electronic address: lvyingli_hmu@163.com.
Yingli
Y
Lv
D053263:Gene Regulatory Networks; D020043:Genes, Essential; D005800:Genes, Fungal; D012441:Saccharomyces cerevisiae / Q000235:genetics*; D016385:TATA Box
Excess retention; Graph theory; Statistical test; Yeast