The family based association test method: strategies for studying general genotype--phenotype associations

European Journal of Human Genetics : EJHG
S HorvathN M Laird

Abstract

With possibly incomplete nuclear families, the family based association test (FBAT) method allows one to evaluate any test statistic that can be expressed as the sum of products (covariance) between an arbitrary function of an offspring's genotype with an arbitrary function of the offspring's phenotype. We derive expressions needed to calculate the mean and variance of these test statistics under the null hypothesis of no linkage. To give some guidance on using the FBAT method, we present three simple data analysis strategies for different phenotypes: dichotomous (affection status), quantitative and censored (eg, the age of onset). We illustrate the approach by applying it to candidate gene data of the NIMH Alzheimer Disease Initiative. We show that the RC-TDT is equivalent to a special case of the FBAT method. This result allows us to generalise the RC-TDT to dominant, recessive and multi-allelic marker codings. Simulations compare the resulting FBAT tests to the RC-TDT and the S-TDT. The FBAT software is freely available.

Citations

Mar 4, 2009·Archives of General Psychiatry·Lindsay A FarrerJoel Gelernter
Nov 13, 2008·Archives of Neurology·Joseph H LeeUNKNOWN National Institute on Aging Late-Onset Alzheimer's Disease Family Study Group
Apr 25, 2012·Journal of Molecular Medicine : Official Organ of the Gesellschaft Deutscher Naturforscher Und Ärzte·Yi-Cheng ChangLee-Ming Chuang
Mar 16, 2006·Diabetologia·H Q QuC Polychronakos
Dec 12, 2007·Diabetologia·H-Q QuC Polychronakos
Jul 11, 2007·Osteoporosis International : a Journal Established As Result of Cooperation Between the European Foundation for Osteoporosis and the National Osteoporosis Foundation of the USA·S ErmakovG Livshits
Jun 23, 2009·Osteoporosis International : a Journal Established As Result of Cooperation Between the European Foundation for Osteoporosis and the National Osteoporosis Foundation of the USA·X-H XuH-W Deng
May 26, 2006·Human Genetics·Ida MalkinGregory Livshits
May 10, 2013·Human Genetics·Jessica Briseño-RuizAlexandre R Vieira
Jun 19, 2013·Archives of Women's Mental Health·Efrat CzerniakEva Gak
Oct 2, 2004·Neurogenetics·Sofia A OliveiraEden R Martin
Apr 7, 2005·Current Atherosclerosis Reports·John W Belmont, Suzanne M Leal
Apr 2, 2005·Current Psychiatry Reports·Douglas F Levinson
Apr 4, 2013·European Archives of Paediatric Dentistry : Official Journal of the European Academy of Paediatric Dentistry·A R VieiraA Modesto
Dec 17, 2003·Biological Psychiatry·Jordan W SmollerSusan A Slaugenhaupt
Dec 19, 2008·European Journal of Human Genetics : EJHG·Sun J ChoiThomas C Hart
Apr 3, 2008·European Journal of Human Genetics : EJHG·Guohua ZhuSreekumar G Pillai
Aug 19, 2010·European Journal of Human Genetics : EJHG·Bernhard M KaessMaciej Tomaszewski
Mar 16, 2012·European Journal of Human Genetics : EJHG·Lisbeth Venø KruseAnders Dupont Børglum
Jun 24, 2009·International Journal of Obesity : Journal of the International Association for the Study of Obesity·N Y SourenM P Zeegers
Mar 17, 2010·International Journal of Obesity : Journal of the International Association for the Study of Obesity·M KorostishevskyG Livshits
Oct 7, 2008·Nature Genetics·Fedik RahimovJeffrey C Murray
Nov 15, 2011·Nature Genetics·Chiea Chuen KhorUNKNOWN Blue Mountains Eye Study

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