基因组规模代谢网络模型的自动化重构

Research on the Auto-Reconstruction of Genome-Scale Metabolic Network Model

DOI：10.3969/j.issn.1673-1689.2014.09.011

中文关键词: 基因组规模 代谢网络 自动化重构 直方图

英文关键词: genome-scale, metabolic networks, auto-reconstruction, histogram

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中文摘要:

对基于KEGG在线数据库、Uniprot-MetaCyc数据库，以及同源比对3种构建基因组规模代谢网络模型的方法进行了自动化研究。同时提出了基于反应式字符频度直方图的马氏距离比对算法，并应用于模型整合和模型核心反应的识别。上述自动化方法的研究均在树干毕赤酵母基因组规模代谢网络重构过程中得到运用实施，对于提高模型构建效率意义重大。

英文摘要:

Three kinds of methods for reconstruction of genome-scale metabolic network model, which were based on KEGG online database, Uniprot-MetaCyc databases and homologous alignment, have been studied for the process automation. Meanwhile, it has proposed an algorithm called Mahalanobis distance which was used to calculate the distance between reactions character frequency histogram. This algorithm can be used to the auto-integration of the draft model reactions and identify the core breakpoint. As an illustration example, the all automatic methods were implemented in the process of genome-scale metabolic reconstruction of Scheffersomyces stipitis, and confirming that these can improve the efficiency of model reconstruction.

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