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Combinations of SNP genotypes from the Wellcome Trust Case Control Study of bipolar patients

Published online by Cambridge University Press:  06 December 2017

Erling Mellerup*
Affiliation:
Department of Neuroscience and Pharmacology, Faculty of Health, University of Copenhagen, Copenhagen, Denmark
Martin Balslev Jørgensen
Affiliation:
Psychiatric Centre Copenhagen, Copenhagen University Hospital, Copenhagen, Denmark
Henrik Dam
Affiliation:
Psychiatric Centre Copenhagen, Copenhagen University Hospital, Copenhagen, Denmark
Gert Lykke Møller
Affiliation:
Genokey, ScionDTU, Technical University of Denmark, Hoersholm, Denmark
*
Erling Mellerup, Department of Neuroscience and Pharmacology, Faculty of Health, University of Copenhagen, Copenhagen, Denmark. Tel: +45 21648408; E-mail: mellerup@sund.ku.dk

Abstract

Objectives

Combinations of genetic variants are the basis for polygenic disorders. We examined combinations of SNP genotypes taken from the 446 729 SNPs in The Wellcome Trust Case Control Study of bipolar patients.

Methods

Parallel computing by graphics processing units, cloud computing, and data mining tools were used to scan The Wellcome Trust data set for combinations.

Results

Two clusters of combinations were significantly associated with bipolar disorder. One cluster contained 68 combinations, each of which included five SNP genotypes. Of the 1998 patients, 305 had combinations from this cluster in their genome, but none of the 1500 controls had any of these combinations in their genome. The other cluster contained six combinations, each of which included five SNP genotypes. Of the 1998 patients, 515 had combinations from the cluster in their genome, but none of the 1500 controls had any of these combinations in their genome.

Conclusion

Clusters of combinations of genetic variants can be considered general risk factors for polygenic disorders, whereas accumulation of combinations from the clusters in the genome of a patient can be considered a personal risk factor.

Type
Original Article
Copyright
© Scandinavian College of Neuropsychopharmacology 2017 

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