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首页> 外文会议>International Conference on Computational Science and Its Applications(ICCSA 2006) pt.1; 20060508-11; Glasgow(GB) >Yeast Naked DNA Spatial Organization Predisposes to Transcriptional Regulation
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Yeast Naked DNA Spatial Organization Predisposes to Transcriptional Regulation

机译：酵母DNA裸空间组织易于转录调控

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摘要

This paper presents a new structural-based approach to explore spatial organization of naked DNA on a whole chromosome sequence and its biological features related to gene regulation. A 3D trajectory representation on full-length yeast chromosomes based on Bolshoy's conformation model is discussed. These trajectories are predicted by our visualizing system ADN-Viewer. Observations show interesting geometric properties of chromosomes dealing with variability of 3D structures and the fact that regions linearly distant could be spatially close. These new observed phenomena are correlated then with biological considerations. In particular, transcriptional co-regulation of the data of Lee et al., 2002 are exploited. A characterization parameter (RLS), ratio of linear distance and 3D one, was computed for each couple of genes. The co-regulated genes are found to be either linearly distant and spatially close, or linearly close. The co-regulated genes arranged in ID-clusters could be detected directly in raw data. But, our model offers new predictions of co-regulated genes thanks to 3D-clusters. Then, we concluded that yeast naked DNA spatial organization seems to predispose to transcriptional regulation.
机译：本文提出了一种新的基于结构的方法，以探索整个染色体序列上裸DNA的空间组织及其与基因调控有关的生物学特征。讨论了基于Bolshoy构象模型的全长酵母染色体上的3D轨迹表示。这些轨迹是由我们的可视化系统ADN-Viewer预测的。观察结果表明，处理3D结构变异的染色体具有有趣的几何特性，并且线性间隔的区域在空间上可能接近。然后，将这些新观察到的现象与生物学考虑因素相关联。特别地，利用了Lee等，2002的数据的转录共调控。计算每对基因的特征参数（RLS），线性距离的比率和3D比率。发现共同调节的基因是线性距离远且在空间上接近或线性接近的。可以直接在原始数据中检测到排列在ID簇中的共调控基因。但是，由于3D聚类，我们的模型提供了对共调控基因的新预测。然后，我们得出结论，酵母裸DNA空间结构似乎倾向于转录调控。

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