Record added by Jurg Ott (the original Rockefeller list)

Full Name

Association in the Presence of Linkage with Ordered Subset Analysis


In the presence of genetic heterogeneity, APL-OSA can identify a genetically homogenous subset of families based on a trait-related covariate. APL-OSA then tests the relationship between the association statistics (i.e., the APL statistics) calculated based on the subset and the family-specific covariate. APL-OSA is based on the OSA method for linkage and the family-based association test, APL. Thus, APL-OSA has similar properties with OSA and APL. Bi-alleleic markers such as SNPs are accepted by APL-OSA. APL-OSA is a single-marker test and considers one covariate each time.


  • Elizabeth R. Hauser

  • email: apl-osa@chg.duhs.duke.edu






UNIX(Solaris), Linux(RedHat), MS-Windows(XP)


  • Martin, Bass, Hauser, Kaplan (2003), “Accounting for linkage in family-based tests of association with missing parental genotypes”, American Journal of Human Genetics, 73:1016-1026

  • Hauser, Watanabe, Duren, Bass, Langefeld, Boehnke (2004), “Ordered subset analysis in genetic linkage mapping of complex traits”, Genetic Epidemiology, 27:53-63.

  • Chung, Hauser, martin (2006), “The APL test: extension to general nuclear families and haplotypes and examination of its robustness”, Human Heredity, 61:189-199.