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Maximum Identity Length Contrast: A Powerful Method For Susceptibility Gene Detection in Isolated Populations
Author(s) -
Bourgain Catherine,
Génin Emmanuelle,
Margaritte-Jeannin Patricia,
Clerget-Darpoux Françoise
Publication year - 2001
Publication title -
genetic epidemiology
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.301
H-Index - 98
eISSN - 1098-2272
pISSN - 0741-0395
DOI - 10.1002/gepi.2001.21.s1.s560
Subject(s) - haplotype , contrast (vision) , statistic , biology , linkage (software) , genetics , candidate gene , population , genetic association , genome , computational biology , identity (music) , statistics , gene , mathematics , computer science , genotype , single nucleotide polymorphism , artificial intelligence , physics , medicine , environmental health , acoustics
We report the results of our analysis of the Genetic Analysis Workshop 12 simulated data set. Focusing on the isolated populations, we compare the efficiency of a new method, the maximum identity length contrast statistic (MILC) with the maximum likelihood score (MLS) in a genome screen strategy. MILC is a method based on the contrast of haplotype identity between transmitted and nontransmitted haplotypes in trios. It uses information on linkage and association. We found that MILC allows the detection of a risk factor corresponding to candidate gene 1 where the MLS fails, though the same population replicates were used. Interestingly, the association between this risk factor and the disease could not have been detected with the TDT at a genome‐wide level. © 2001 Wiley‐Liss, Inc.