Xu Xiao-Jiang, Wang Lian-Shui, Ding Da-Fu
Key Laboratory of Proteomics, Institute of Biochemistry and Cell Biology, Shanghai Institutes for Biological Sciences, the Chinese Academy of Sciences, Shanghai 200031, China.
Sheng Wu Hua Xue Yu Sheng Wu Wu Li Xue Bao (Shanghai). 2003 Aug;35(8):707-16.
Gene networks is the collection of gene-gene regulatory relations at the expression level. In this study, a combined approach of the linear transcriptional modeling, identification of promoter elements and gene co-expression clustering is developed to decipher yeast gene networks from expression time series. The cell must reorganize the genomic expression to programs required for growth and survival in each environment. The expression of many genes is regulated by environmental stress. The products of many genes that induced in the environmental stress are involved in metabolism of carbohydrates, structural repairs and even sporulation. Interestingly, it is identified that transcription factors Mcm1 and Dal82 matched their binding sites TT[bond]CC[triple bond]T[double bond]GGAAA and TGAAAAWTTT in cell cycle progression and environmental stress response, respectively. These conclusions agree with the known observations. The results indicate that the approach may be useful for modeling gene networks from microarray data.
基因网络是基因-基因在表达水平上调控关系的集合。在本研究中，开发了一种结合线性转录建模、启动子元件识别和基因共表达聚类的方法，以从表达时间序列中解读酵母基因网络。细胞必须将基因组表达重新组织成在每种环境中生长和存活所需的程序。许多基因的表达受环境压力调控。在环境压力下诱导产生的许多基因的产物参与碳水化合物代谢、结构修复甚至孢子形成。有趣的是，已确定转录因子Mcm1和Dal82分别在细胞周期进程和环境应激反应中与其结合位点TT[键]CC[三键]T[双键]GGAAA和TGAAAAWTTT相匹配。这些结论与已知观察结果一致。结果表明，该方法可能有助于从微阵列数据对基因网络进行建模。
