CAJ | 학술논문

基因本体(GO)数据库为基因提供了统一的注释,有效地解决了不同数据库描述相同基因的不一致问题.但是,根据基因注释如何比较基因的功能相似性,这个问题仍然没有得到有效解决.本文提出一种新的基因注释语义相似度计算方法,这种方法在本质上是基于基因的生物学特性,其特点在于结点的语义相似度与结点所在集合无关,只与结点在GO图的位置有关,语义相似度可被重复利用.它既考虑了基因所映射的GO结点深度,又考虑了两GO结点之间所有路径对结点语义相似度的影响.文中以酵母菌的异亮氨酸降解代谢通路和谷氨酸合成代谢通路为实验,实验结果表明这种算法能准确地计算基因注释语义相似度.
기인본체(GO)수거고위기인제공료통일적주석,유효지해결료불동수거고묘술상동기인적불일치문제.단시,근거기인주석여하비교기인적공능상사성,저개문제잉연몰유득도유효해결.본문제출일충신적기인주석어의상사도계산방법,저충방법재본질상시기우기인적생물학특성,기특점재우결점적어의상사도여결점소재집합무관,지여결점재GO도적위치유관,어의상사도가피중복이용.타기고필료기인소영사적GO결점심도,우고필료량GO결점지간소유로경대결점어의상사도적영향.문중이효모균적이량안산강해대사통로화곡안산합성대사통로위실험,실험결과표명저충산법능준학지계산기인주석어의상사도.
Although the gene ontology (GO) provides a consistent gene annotation,which effectively tackles the problem that the same genes are described as different biological vocabularies in heterogeneous data sources. However,there is still no effective method to determine the functional similarities of genes based on gene annotation information. The paper proposed a new method to measure the semantic similarities of gene annotations. The approach,in essence,is based on biological property of genes. The semantic similarities of GO terms measured by the method are only relative to the characteristics of these GO terms,but not to the set that these GO terms belong to. The method considers not only the depth of GO terms,but also the contribution of every path distance between two GO terms. The approach has been applied to analysis of isoleucine degradation pathway and super-pathway of glutamate biosynthesis in Saccharomyces cerevisiae. The results show the method may exactly measure the semantic similarities of gene annotations.