| 一种基于基因表达模型识别酵母细胞周期条件特异调控子网的方法 |
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| 引用本文： | 刘齐军,王正华,刘万霖,李栋,贺福初,朱云平. 一种基于基因表达模型识别酵母细胞周期条件特异调控子网的方法[J]. 生物化学与生物物理进展, 2010, 37(4): 402-415 |
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| 作者姓名： | 刘齐军 王正华 刘万霖 李栋 贺福初 朱云平 |
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| 作者单位： | 国防科学技术大学并行与分布处理国家重点实验室;蛋白质组学国家重点实验室;北京蛋白质组研究中心;军事医学科学院放射与辐射医学研究所;复旦大学生物医学科学研究所; |
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| 基金项目： | supported by grants from The State Key Laboratory of Proteomics(SKLP-O200811); The National Natural Science Foundation of China (60603054, 30800200, 30621063); National Basic Research Program of China (2006CB910803, 2006CB910706, 2010CB912700); Hi-Tech Research and Development Program of China (2006AA02A312); National S&T Major Project (2008ZX10002-016, 2009ZX09301-002)~~ |
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| 摘 要： | 由高通量微阵列技术产生的数据集可以用于解释生物系统基因调控的未知机制.生物过程是动态的,所以很有必要关注某些条件下特异的基因调控子网络.细胞周期是一个基本的细胞过程,识别酵母的细胞周期特异调控子网是理解细胞周期过程的基础,并且有助于揭示其他细胞条件的基因调控机理.使用一个基因表达微分方程模型(GEDEM),从静态网络中识别了动态的细胞周期相关调控关系.与已经报道的细胞周期相关调控相互作用相比,该方法识别了更多的真实存在的条件特异调控关系,取得了比当前的方法更好的性能.在大数据集上,GEDEM 识别了具有高敏感性和特异性的调控子网.组合调控的深入分析显示,条件特异调控子网的转录因子之间的相关性呈现出比静态网络中转录因子相关性更强,这说明条件特异网络比静态网络更加接近真实情况.另外,GEDEM 方法还识别更多潜在的共调控转录因子.
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| 关 键 词： | 基因调控网络 细胞周期 基因表达模型 条件特异子网 微分方程模型 |
| 收稿时间： | 2009-10-08 |
| 修稿时间： | 2010-01-19 |
A Novel Method to Identify The Condition-specific Regulatory Sub-network That Controls The Yeast Cell Cycle Based on Gene Expression Model |
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| LIU Qi-Jun,WANG Zheng-Hu,LIU Wan-Lin,LI Dong,HE Fu-Chu and ZHU Yun-Ping. A Novel Method to Identify The Condition-specific Regulatory Sub-network That Controls The Yeast Cell Cycle Based on Gene Expression Model[J]. Progress In Biochemistry and Biophysics, 2010, 37(4): 402-415 |
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| Authors: | LIU Qi-Jun WANG Zheng-Hu LIU Wan-Lin LI Dong HE Fu-Chu ZHU Yun-Ping |
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| Affiliation: | LIU Qi-Jun1,2),WANG Zheng-Hua1),LIU Wan-Lin2),LI Dong2),HE Fu-Chu2,3)**,ZHU Yun-Ping2)** (1) National Laboratory for Parallel & Distributed Processing,National University of Defense Technology,Changsha 410073,China,2) State Key Laboratory of Proteomics,Beijing Proteome Research Center,Beijing Institute of Radiation Medicine,Beijing 102206,3) Institutes of Biomedical Sciences,Fudan University,Shanghai 200032,China) |
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| Abstract: | The huge datasets produced from high-throughput microarray technology can elucidate unknown mechanisms of gene regulation in biological systems. Because biological processes are dynamic, it is relevant to focus on certain condition-specific gene regulatory sub-networks. The cell cycle is a basic cellular process, thus, identifying cell cycle specific regulatory sub-networks in yeast will provide a basis for understanding the cell cycle and may be important in other cellular conditions. With a gene expressio... |
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| Keywords: | gene regulatory network cell cycle gene expression model condition-specific sub-network differential equation model |
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