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SAS Code to Fit Genetic Models

SAS Code to Fit Log-Linear Models for Offspring Gentoype Effects, Maternal Genotype Effects and Imprinting

 

The code includes a file that allows computer output checks. The log-linear SAS code is designed for data sets with missing parents. It does not work properly if parents are included. The program was developed by Richard Morris, Ph.D., and Clarice Weinberg, Ph.D. The Hybrid_Design log-linear model is described in Weinberg CR, Umbach DM. A hybrid design for studying genetic influences on risk of diseases with early onset in life. Am J Hum Genet 2005 Oct;77(4):627-36.

 

Log Linear Model (505B) Sample output (updated 2006/01/19)

Log Linear Model (16KB) SAS code (updated 2006/01/19)

 

SAS Code to Fit Polytomous and Additive Logistic Models for Single Offspring Gentoype Effects With Missing Fathers or Mothers

 

These models are described in Kistner EO, Wenberg CR. Method for using complete and incomplete trios to identify genes related to a quantitative trait. Genet Epidemiol 2004 Jul;27(1):33-42.

 

add1 (16KB) is the Additive Logistic Model for Missing Parents

qpl1 (17KB) is the Polytomous Logistic Model for Missing Parents

 

SAS Code to Fit Polytomous and Additive Logistic Models for Multiple Offspring Genotype Effects With Missing Fathers or Mothers

 

These models are described in Kistner EO, Weinberg CR. A method for identifying genes related to a quantitative trait, incorporating multiple siblings and missing parents. Genet Epidemiol 2005 Sep;29(2):155-65.

 

add3 (6KB) is the Additive Logistic Model for Multiple Children and Missing Parents

qpl3 (5KB) is the Polytomous Logistic Model for Multiple Children and Missing Parents

lib2 (86KB) are the functions that are called in add3.TXT and qpl3.TXT

 

SAS Code to Fit Polytomous Logistic Model for Maternal Effects With Single Offspring and Missing Fathers or Mothers

 

The code may also be changed slightly as described in maternal1.txt to fit a model for parent-of-origin effects. It is a polytomous logistic model for maternal or parent-of-origin effects with single offspring and missing fathers or mothers. These models are described in Kistner EO, Infante-Rivard C, Weinberg CR. A method for using incomplete triads to test maternally-mediated genetic effects and parent-of-origin effects in relation to a quantitative trait. Am J Epidemiol 2006 Feb;163(3):255-61.

 

maternal1 (22KB) SAS source code (updated 2006/02/15)

 

Contact

Clarice R. Weinberg, Ph.D. (http://www.niehs.nih.gov/research/atniehs/labs/bb/staff/weinberg/index.cfm)
Chief, Biostatistics Branch
Tel (919) 541-4927
Fax (919) 541-4311
weinber2@niehs.nih.gov

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