Genome-wide linkage analysis of 972 bipolar pedigrees using single-nucleotide polymorphisms

J. A. Badner, D. Koller, Tatiana Foroud, Howard Edenberg, John Nurnberger, P. P. Zandi, V. L. Willour, F. J. McMahon, J. B. Potash, M. Hamshere, D. Grozeva, E. Green, G. Kirov, I. Jones, L. Jones, N. Craddock, D. Morris, R. Segurado, M. Gill, D. Sadovnick & 13 others R. Remick, P. Keck, J. Kelsoe, M. Ayub, A. MacLean, D. Blackwood, C. Y. Liu, E. S. Gershon, W. McMahon, G. J. Lyon, R. Robinson, J. Ross, W. Byerley

Research output: Contribution to journalArticle

18 Citations (Scopus)

Abstract

Because of the high costs associated with ascertainment of families, most linkage studies of Bipolar I disorder (BPI) have used relatively small samples. Moreover, the genetic information content reported in most studies has been less than 0.6. Although microsatellite markers spaced every 10 cM typically extract most of the genetic information content for larger multiplex families, they can be less informative for smaller pedigrees especially for affected sib pair kindreds. For these reasons we collaborated to pool family resources and carried out higher density genotyping. Approximately 1100 pedigrees of European ancestry were initially selected for study and were genotyped by the Center for Inherited Disease Research using the Illumina Linkage Panel 12 set of 6090 single-nucleotide polymorphisms. Of the 1100 families, 972 were informative for further analyses, and mean information content was 0.86 after pruning for linkage disequilibrium. The 972 kindreds include 2284 cases of BPI disorder, 498 individuals with bipolar II disorder (BPII) and 702 subjects with recurrent major depression. Three affection status models (ASMs) were considered: ASM1 (BPI and schizoaffective disorder, BP cases (SABP) only), ASM2 (ASM1 cases plus BPII) and ASM3 (ASM2 cases plus recurrent major depression). Both parametric and non-parametric linkage methods were carried out. The strongest findings occurred at 6q21 (non-parametric pairs LOD 3.4 for rs1046943 at 119 cM) and 9q21 (non-parametric pairs logarithm of odds (LOD) 3.4 for rs722642 at 78 cM) using only BPI and schizoaffective (SA), BP cases. Both results met genome-wide significant criteria, although neither was significant after correction for multiple analyses. We also inspected parametric scores for the larger multiplex families to identify possible rare susceptibility loci. In this analysis, we observed 59 parametric LODs of 2 or greater, many of which are likely to be close to maximum possible scores. Although some linkage findings may be false positives, the results could help prioritize the search for rare variants using whole exome or genome sequencing.

Original languageEnglish
Pages (from-to)818-826
Number of pages9
JournalMolecular Psychiatry
Volume17
Issue number8
DOIs
StatePublished - Aug 2012

Fingerprint

Pedigree
Bipolar Disorder
Single Nucleotide Polymorphism
Genome
Depression
Exome
Linkage Disequilibrium
Psychotic Disorders
Microsatellite Repeats
Costs and Cost Analysis
Research

Keywords

  • bipolar disorder
  • genome-wide linkage analysis
  • single-nucleotide polymorphisms

ASJC Scopus subject areas

  • Molecular Biology
  • Psychiatry and Mental health
  • Cellular and Molecular Neuroscience

Cite this

Genome-wide linkage analysis of 972 bipolar pedigrees using single-nucleotide polymorphisms. / Badner, J. A.; Koller, D.; Foroud, Tatiana; Edenberg, Howard; Nurnberger, John; Zandi, P. P.; Willour, V. L.; McMahon, F. J.; Potash, J. B.; Hamshere, M.; Grozeva, D.; Green, E.; Kirov, G.; Jones, I.; Jones, L.; Craddock, N.; Morris, D.; Segurado, R.; Gill, M.; Sadovnick, D.; Remick, R.; Keck, P.; Kelsoe, J.; Ayub, M.; MacLean, A.; Blackwood, D.; Liu, C. Y.; Gershon, E. S.; McMahon, W.; Lyon, G. J.; Robinson, R.; Ross, J.; Byerley, W.

In: Molecular Psychiatry, Vol. 17, No. 8, 08.2012, p. 818-826.

Research output: Contribution to journalArticle

Badner, JA, Koller, D, Foroud, T, Edenberg, H, Nurnberger, J, Zandi, PP, Willour, VL, McMahon, FJ, Potash, JB, Hamshere, M, Grozeva, D, Green, E, Kirov, G, Jones, I, Jones, L, Craddock, N, Morris, D, Segurado, R, Gill, M, Sadovnick, D, Remick, R, Keck, P, Kelsoe, J, Ayub, M, MacLean, A, Blackwood, D, Liu, CY, Gershon, ES, McMahon, W, Lyon, GJ, Robinson, R, Ross, J & Byerley, W 2012, 'Genome-wide linkage analysis of 972 bipolar pedigrees using single-nucleotide polymorphisms', Molecular Psychiatry, vol. 17, no. 8, pp. 818-826. https://doi.org/10.1038/mp.2011.89
Badner, J. A. ; Koller, D. ; Foroud, Tatiana ; Edenberg, Howard ; Nurnberger, John ; Zandi, P. P. ; Willour, V. L. ; McMahon, F. J. ; Potash, J. B. ; Hamshere, M. ; Grozeva, D. ; Green, E. ; Kirov, G. ; Jones, I. ; Jones, L. ; Craddock, N. ; Morris, D. ; Segurado, R. ; Gill, M. ; Sadovnick, D. ; Remick, R. ; Keck, P. ; Kelsoe, J. ; Ayub, M. ; MacLean, A. ; Blackwood, D. ; Liu, C. Y. ; Gershon, E. S. ; McMahon, W. ; Lyon, G. J. ; Robinson, R. ; Ross, J. ; Byerley, W. / Genome-wide linkage analysis of 972 bipolar pedigrees using single-nucleotide polymorphisms. In: Molecular Psychiatry. 2012 ; Vol. 17, No. 8. pp. 818-826.
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AU - Zandi, P. P.

AU - Willour, V. L.

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