Overview of the Rapid Response data.
The Type I Diabetes Genetics Consortium (T1DGC) Rapid Response Workshop was established to evaluate published candidate gene associations in a large collection of affected sib-pair (ASP) families. We report on our quality control (QC) and preliminary family-based association analyses. A random sample of blind duplicates was analyzed for QC. Quality checks, including examination of plate-panel yield, marker yield, Hardy-Weinberg equilibrium, mismatch error rate, Mendelian error rate, and allele distribution across plates, were performed. Genotypes from 2324 families within nine cohorts were obtained from a panel of 21 candidate genes, including 384 single-nucleotide polymorphisms on two genotyping platforms performed at the Broad Institute Center for Genotyping and Analysis (Cambridge, MA, USA). The T1DGC Rapid Response project, following rigorous QC procedures, resulted in a 2297 family, 9688 genotyped individual database on a single-candidate gene panel. The available data include 9005 individuals with genotype data from both platforms and 683 individuals genotyped (276 in Illumina; 407 in Sequenom) on only one platform.
Brown
W M
WM
Division of Public Health Sciences, Department of Biostatistics, Wake Forest University Health Sciences, Winston-Salem, NC 27157, USA. wmbrown@wfubmc.edu
Pierce
J J
JJ
Hilner
J E
JE
Perdue
L H
LH
Lohman
K
K
Lu
L
L
de Bakker
P I W
PI
Irenze
K
K
Ziaugra
L
L
Mirel
D B
DB
D030561:Databases, Nucleic Acid; D003922:Diabetes Mellitus, Type 1 / Q000235:genetics*; D020022:Genetic Predisposition to Disease; D005838:Genotype; D006801:Humans; D020641:Polymorphism, Single Nucleotide; D011786:Quality Control