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Chunk #17 — MATERIALS AND METHODS — Zygosity Determination and Genotyping

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Can we identify genes for alcohol consumption in samples ascertained for heterogeneous purposes?
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yes

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Participants have typically participated in multiple studies, and consequently, genotype data have come from a compilation of microsatellite genome scans performed for ~15 different studies at the Queensland Institute of Medical Research (QIMR). These were conducted at a number of facilities: (a) Sequana Therapeutics, 437 markers; (b) Gemini Genomics, 222 markers; (c) the Marshfield Clinic's Mammalian Genotyping Service, 777 markers (only 393 markers for some studies) (d) the University of Leiden, 430 markers; (e) the Australian Genome Research Facility, 394 markers; and (f) the Finnish Genome Centre, 400 markers. Allowing for overlap between the various sets (most centres used the ABI2 set), there were in total 1461 unique markers, although no individual was genotyped for all of these. Note that additional markers in these datasets were available, but were excluded due to concerns about unreliability given earlier comparisons of allele calls between the genome scans (Cornes et al., 2005).