Pathway-based approaches for analysis of genomewide association studies

被引:690
作者
Wang, Kai [1 ]
Li, Mingyao
Bucan, Maja
机构
[1] Univ Penn, Dept Genet, Philadelphia, PA 19104 USA
[2] Univ Penn, Dept Biostat & Epidemiol, Philadelphia, PA 19104 USA
关键词
D O I
10.1086/522374
中图分类号
Q3 [遗传学];
学科分类号
071007 ; 090102 ;
摘要
Published genomewide association (GWA) studies typically analyze and report single-nucleotide polymorphisms (SNPs) and their neighboring genes with the strongest evidence of association (the "most-significant SNPs/genes" approach), while paying little attention to the rest. Borrowing ideas from microarray data analysis, we demonstrate that pathway-based approaches, which jointly consider multiple contributing factors in the same pathway, might complement the most-significant SNPs/genes approach and provide additional insights into interpretation of GWA data on complex diseases.
引用
收藏
页码:1278 / 1283
页数:6
相关论文
共 29 条
[1]   Gene Ontology: tool for the unification of biology [J].
Ashburner, M ;
Ball, CA ;
Blake, JA ;
Botstein, D ;
Butler, H ;
Cherry, JM ;
Davis, AP ;
Dolinski, K ;
Dwight, SS ;
Eppig, JT ;
Harris, MA ;
Hill, DP ;
Issel-Tarver, L ;
Kasarskis, A ;
Lewis, S ;
Matese, JC ;
Richardson, JE ;
Ringwald, M ;
Rubin, GM ;
Sherlock, G .
NATURE GENETICS, 2000, 25 (01) :25-29
[2]   Glutamate and Parkinson's disease [J].
Blandini, F ;
Porter, RHP ;
Greenamyre, JT .
MOLECULAR NEUROBIOLOGY, 1996, 12 (01) :73-94
[3]   Resampling-based multiple hypothesis testing procedures for genetic case-control association studies [J].
Chen, Bingshu E. ;
Sakoda, Lori C. ;
Hsing, Ann W. ;
Rosenberg, Philip S. .
GENETIC EPIDEMIOLOGY, 2006, 30 (06) :495-507
[4]   Pathways to the analysis of microarray data [J].
Curtis, RK ;
Oresic, M ;
Vidal-Puig, A .
TRENDS IN BIOTECHNOLOGY, 2005, 23 (08) :429-435
[5]   O-glycosylation in sprouting neurons in Alzheimer disease, indicating reactive plasticity [J].
Espinosa, B ;
Zenteno, R ;
Mena, R ;
Robitaille, Y ;
Zenteno, E ;
Guevara, J .
JOURNAL OF NEUROPATHOLOGY AND EXPERIMENTAL NEUROLOGY, 2001, 60 (05) :441-448
[6]   Human genetics - Variants in common diseases [J].
Freimer, Nelson B. ;
Sabatti, Chiara .
NATURE, 2007, 445 (7130) :828-830
[7]   Genome-wide genotyping in Parkinson's disease and neurologically normal controls:: first stage analysis and public release of data [J].
Fung, Hon-Chung ;
Scholz, Sonja ;
Matarin, Mar ;
Simon-Sanchez, Javier ;
Hernandez, Dena ;
Britton, Angela ;
Gibbs, J. Raphael ;
Langefeld, Carl ;
Stiegert, Matt L. ;
Schymick, Jennifer ;
Okun, Michael S. ;
Mandel, Ronald J. ;
Fernandez, Hubert H. ;
Foote, Kelly D. ;
Rodriguez, Ramon L. ;
Peckham, Elizabeth ;
De Vrieze, Fabienne Wavrant ;
Gwinn-Hardy, Katrina ;
Hardy, John A. ;
Singleton, Andrew .
LANCET NEUROLOGY, 2006, 5 (11) :911-916
[8]   Overview: ABC transporters and human disease [J].
Gottesman, MM ;
Ambudkar, SV .
JOURNAL OF BIOENERGETICS AND BIOMEMBRANES, 2001, 33 (06) :453-458
[9]   Cycling of O-linked β-N-acetylglucosamine on nucleocytoplasmic proteins [J].
Hart, Gerald W. ;
Housley, Michael P. ;
Slawson, Chad .
NATURE, 2007, 446 (7139) :1017-1022
[10]  
Hollander M., 1999, Nonparametric Statistical Methods