Promoter prediction analysis on the whole human genome
Promoter prediction analysis on the whole human genome
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DOI：
10.1038/nbt1032
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发表时间：
2004-11-01
影响因子：
46.9
通讯作者：
Sugano, S
中科院分区：
文献类型：
--
作者：
Bajic, VB;Tan, SL;Sugano, S
启动子预测程序（Promoter prediction programmes，PPPs）在基因调控分析和基因组注释中，对于没有表达序列标签（expressed sequence tag，EST）/cDNA/mRNA序列支持的计算机基因发现具有重要意义。与之前的预期相反，对PPP的全面分析表明，没有任何程序可以同时实现灵敏度和阳性预测值> 65%。从有限数量的染色体或较小的数据集推导出的PPP性能在全基因组水平评估时不成立，对于非CpG岛相关启动子的预测严重不准确。有些PPP的表现甚至比纯随机猜测更差，或者接近纯随机猜测。
Promoter prediction programs (PPPs) are important for in silico gene discovery without support from expressed sequence tag (EST)/cDNA/mRNA sequences, in the analysis of gene regulation and in genome annotation. Contrary to previous expectations, a comprehensive analysis of PPPs reveals that no program simultaneously achieves sensitivity and a positive predictive value >65%. PPP performances deduced from a limited number of chromosomes or smaller data sets do not hold when evaluated at the level of the whole genome, with serious inaccuracy of predictions for non-CpG-island-related promoters. Some PPPs even perform worse than, or close to, pure random guessing.