小鼠中血清因子结合位点位置分布及保守性的生物信息学分析

Bioinformatics Analysis of Position Distribution and Conservation of Serum Response Factor Binding Site in Mice

目的:血清反应因子在与心血管相关的疾病基因调控方面的作用越来越重要。血清反应因子识别的结合位点CArG元件因其重要的基因调控作用近年来随之备受关。本研究目的是揭示血清因子结合位点的位置分布与功能的关系及CArG元件内部各个位点的保守性。方法:本研究应用生物信息学方法结合遗传学方法对小鼠中CArG元件的位置分布、位点替换率及GO分类进行深入研究。结果:结果表明,71%的功能CArG元件分布在转录起始位点上游,且距离转录起始位点越近,CArG元件的数量越多。保守性分析发掘出元件内部的替换冷点、热点及替换规律。GO分类结果显示,CArG依赖性基因多为信号转导和细胞骨架蛋白。结论:上述研究结果将为准确预测候选CArG元件提供重要理论基础,同时也将为更为深入阐述SRF的调控模式奠定基础。

Objective： The serum response factor is one of the valuable transcription factors because of its important role in gene expression. In turn, cis-elements CArG bound by serum response factor is getting more and more attention. This study is going to reveal the position distribution and conservation of CArG elements. Methods： We study the position distribution, substitution of CArG elements and GO of CArG dependent genes in mouse by the bioinformatics and genetic methods. Results： Our results show that 71% functional CArG elements exist upstream to the annotated TSS, with copy number increasing as one move closer to the TSS. The conservation analysis revealed the substitution pattern. What＇ more, GO analysis results show that the CArG-dependent genes mostly are signaling and cytoskeleton protein. Conclusion： The results will be a great help in predicting the candidate CArG elements and attempting to distinguish the functional CArG elements through alignments. And it will be fundamental in study the regulatory system of SRF.