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Defining the Contribution of CNTNAP2 to Autism Susceptibility

Author

Listed:
  • Srirangan Sampath
  • Shambu Bhat
  • Simone Gupta
  • Ashley O’Connor
  • Andrew B West
  • Dan E Arking
  • Aravinda Chakravarti

Abstract

Multiple lines of genetic evidence suggest a role for CNTNAP2 in autism. To assess its population impact we studied 2148 common single nucleotide polymorphisms (SNPs) using transmission disequilibrium test (TDT) across the entire ~3.3 Mb CNTNAP2 locus in 186 (408 trios) multiplex and 323 simplex families with autistic spectrum disorder (ASD). This analysis yielded two SNPs with nominal statistical significance (rs17170073, p = 2.0 x 10-4; rs2215798, p = 1.6 x 10-4) that did not survive multiple testing. In a combined analysis of all families, two highly correlated (r2 = 0.99) SNPs in intron 14 showed significant association with autism (rs2710093, p = 9.0 x 10-6; rs2253031, p = 2.5 x 10-5). To validate these findings and associations at SNPs from previous autism studies (rs7794745, rs2710102 and rs17236239) we genotyped 2051 additional families (572 multiplex and 1479 simplex). None of these variants were significantly associated with ASD after corrections for multiple testing. The analysis of Mendelian errors within each family did not indicate any segregating deletions. Nevertheless, a study of CNTNAP2 gene expression in brains of autistic patients and of normal controls, demonstrated altered expression in a subset of patients (p = 1.9 x10-5). Consequently, this study suggests that although CNTNAP2 dysregulation plays a role in some cases, its population contribution to autism susceptibility is limited.

Suggested Citation

  • Srirangan Sampath & Shambu Bhat & Simone Gupta & Ashley O’Connor & Andrew B West & Dan E Arking & Aravinda Chakravarti, 2013. "Defining the Contribution of CNTNAP2 to Autism Susceptibility," PLOS ONE, Public Library of Science, vol. 8(10), pages 1-1, October.
    • Handle: RePEc:plo:pone00:0077906
    DOI: 10.1371/journal.pone.0077906
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    1. Brian J. O’Roak & Laura Vives & Santhosh Girirajan & Emre Karakoc & Niklas Krumm & Bradley P. Coe & Roie Levy & Arthur Ko & Choli Lee & Joshua D. Smith & Emily H. Turner & Ian B. Stanaway & Benjamin V, 2012. "Sporadic autism exomes reveal a highly interconnected protein network of de novo mutations," Nature, Nature, vol. 485(7397), pages 246-250, May.
    2. Lauren A. Weiss & Dan E. Arking, 2009. "A genome-wide linkage and association scan reveals novel loci for autism," Nature, Nature, vol. 461(7265), pages 802-808, October.
    3. Nick Patterson & Alkes L Price & David Reich, 2006. "Population Structure and Eigenanalysis," PLOS Genetics, Public Library of Science, vol. 2(12), pages 1-20, December.
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