| 引用本文: | 丰继华,牟锦,郭亚茹.基于Hi-c数据的酵母染色体三维结构重构[J].生物信息学,2019,17(3):182-188. |
| FENG Jihua,MOU Jin,GUO Yaru.Three-dimensional structure reconstruction of yeast chromosome based on Hi-c data[J].Chinese Journal of Bioinformatics,2019,17(3):182-188. |
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| 摘要: |
| 通过染色体交互频率数据(Hi-c)来预测染色体三维空间结构是近年表观遗传研究热点。研究表明染色体三维空间结构在生物基因表达、调控等方面起到重要作用,对其进行三维重构是研究细胞代谢过程的基本途径。针对酵母Hi-c数据在不同染色体所呈现出的统计特征,拟合出每条染色体交互频率数据分布的数学模型, 然后利用梯度上升迭代算法预测并重构其三维结构,并给出模型评估指标。实验结果表明,模型具有较高可重复性和预测精确度。 |
| 关键词: Hi-c数据 三维结构 梯度上升算法 |
| DOI：10.12113/j.issn.1672-5565.201812007 |
| 分类号:S963.32+7 |
| 文献标识码:A |
| 基金项目:国家自然科学基金项目(No.31160234). |
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| Three-dimensional structure reconstruction of yeast chromosome based on Hi-c data |
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FENG Jihua, MOU Jin, GUO Yaru
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(School of Electrical Information Engineering, Yunnan Minzu University,Kunming 650500,China)
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| Abstract: |
| The prediction of the three-dimensional spatial structure of chromosomes by chromosome interaction frequency data (Hi-c) has been a hot topic in epigenetic studies in recent years. It has been shown that the three-dimensional spatial structure of chromosome plays an important role in gene expression and regulation. Three-dimensional reconstruction is the basic way to study the process of cell metabolism. According to the statistical characteristics of yeast Hi-c data on different chromosomes, the mathematical model of the distribution of the cross-frequency data of each chromosome was fitted, and then the gradient ascending iterative algorithm was used to predict and reconstruct its three-dimensional structure. The evaluation index of the model was established. Experimental results showed that the model has high repeatability and prediction accuracy. |
| Key words: Hi-c data Three-dimensional structure Gradient ascending algorithm |
