标题:From Interaction to Co-Association -A Fisher r-To-z Transformation-Based Simple Statistic for Real World Genome-Wide Association Study
作者:Yuan, Zhongshang; Liu, Hong; Zhang, Xiaoshuai; Li, Fangyu; Zhao, Jinghua; Zhang, Furen; Xue, Fuzhong
作者机构:[Yuan, Zhongshang; Zhang, Xiaoshuai; Li, Fangyu; Xue, Fuzhong] Shandong Univ, Sch Publ Hlth, Dept Epidemiol & Hlth Stat, Jinan 250100, Peoples R China 更多
通讯作者:Xue, FZ
通讯作者地址:[Xue, FZ]Shandong Univ, Sch Publ Hlth, Dept Epidemiol & Hlth Stat, Jinan 250100, Peoples R China.
来源:PLOS ONE
出版年:2013
卷:8
期:7
DOI:10.1371/journal.pone.0070774
摘要:Currently, the genetic variants identified by genome wide association study (GWAS) generally only account for a small proportion of the total heritability for complex disease. One crucial reason is the underutilization of gene-gene joint effects commonly encountered in GWAS, which includes their main effects and co-association. However, gene-gene co-association is often customarily put into the framework of gene-gene interaction vaguely. From the causal graph perspective, we elucidate in detail the concept and rationality of gene-gene co-association as well as its relationship with traditional gene-gene interaction, and propose two Fisher r-to-z transformation-based simple statistics to detect it. Three series of simulations further highlight that gene-gene co-association refers to the extent to which the joint effects of two genes differs from the main effects, not only due to the traditional interaction under the nearly independent condition but the correlation between two genes. The proposed statistics are more powerful than logistic regression under various situations, cannot be affected by linkage disequilibrium and can have acceptable false positive rate as long as strictly following the reasonable GWAS data analysis roadmap. Furthermore, an application to gene pathway analysis associated with leprosy confirms in practice that our proposed gene-gene co-association concepts as well as the correspondingly proposed statistics are strongly in line with reality.
收录类别:SCOPUS;SCIE
WOS核心被引频次:3
Scopus被引频次:5
资源类型:期刊论文
原文链接:https://www.scopus.com/inward/record.uri?eid=2-s2.0-84880839472&doi=10.1371%2fjournal.pone.0070774&partnerID=40&md5=76536ba1892e66a1d65226d6500016d8
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