Deciphering the genetic architecture of low-penetrance susceptibility to colorectal cancer

Nicola Whiffin, Sara E. Dobbins, Fay J. Hosking, Claire Palles, Albert Tenesa, Yufei Wang, Susan M. Farrington, Angela M. Jones, Peter Broderick, Harry Campbell, Polly A. Newcomb, Graham Casey, David V. Conti, Fred Schumacher, Steve Gallinger, Noralane Morey Lindor, John Hopper, Mark Jenkins, Malcolm G. Dunlop, Ian P. TomlinsonRichard S. Houlston

Research output: Contribution to journalArticle

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Abstract

Recent genome-wide association studies (GWASs) have identified common variants at 16 autosomal regions influencing the risk of developing colorectal cancer (CRC). To decipher the genetic basis of the association signals at these loci, we performed a meta-analysis of data from five GWASs, totalling 5626 cases and 7817 controls, using imputation to recover un-typed genotypes. To enhance our ability to discover low-frequency risk variants, in addition to using 1000 Genomes Project data as a reference panel, we made use of high-coverage sequencing data on 253 individuals, 199 with early-onset familial CRC. For 13 of the regions, it was possible to refine the association signal identifying a smaller region of interest likely to harbour the functional variant. Our analysis did not provide evidence that any of the associations at the 16 loci being a consequence of synthetic associations rather than linkage disequilibrium with a common risk variant.

Original languageEnglish (US)
Article numberddt357
Pages (from-to)5075-5082
Number of pages8
JournalHuman Molecular Genetics
Volume22
Issue number24
DOIs
StatePublished - Dec 2013

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Penetrance
Colorectal Neoplasms
Genome-Wide Association Study
Linkage Disequilibrium
Meta-Analysis
Genotype
Genome

ASJC Scopus subject areas

  • Genetics
  • Genetics(clinical)
  • Molecular Biology

Cite this

Whiffin, N., Dobbins, S. E., Hosking, F. J., Palles, C., Tenesa, A., Wang, Y., ... Houlston, R. S. (2013). Deciphering the genetic architecture of low-penetrance susceptibility to colorectal cancer. Human Molecular Genetics, 22(24), 5075-5082. [ddt357]. https://doi.org/10.1093/hmg/ddt357

Deciphering the genetic architecture of low-penetrance susceptibility to colorectal cancer. / Whiffin, Nicola; Dobbins, Sara E.; Hosking, Fay J.; Palles, Claire; Tenesa, Albert; Wang, Yufei; Farrington, Susan M.; Jones, Angela M.; Broderick, Peter; Campbell, Harry; Newcomb, Polly A.; Casey, Graham; Conti, David V.; Schumacher, Fred; Gallinger, Steve; Lindor, Noralane Morey; Hopper, John; Jenkins, Mark; Dunlop, Malcolm G.; Tomlinson, Ian P.; Houlston, Richard S.

In: Human Molecular Genetics, Vol. 22, No. 24, ddt357, 12.2013, p. 5075-5082.

Research output: Contribution to journalArticle

Whiffin, N, Dobbins, SE, Hosking, FJ, Palles, C, Tenesa, A, Wang, Y, Farrington, SM, Jones, AM, Broderick, P, Campbell, H, Newcomb, PA, Casey, G, Conti, DV, Schumacher, F, Gallinger, S, Lindor, NM, Hopper, J, Jenkins, M, Dunlop, MG, Tomlinson, IP & Houlston, RS 2013, 'Deciphering the genetic architecture of low-penetrance susceptibility to colorectal cancer', Human Molecular Genetics, vol. 22, no. 24, ddt357, pp. 5075-5082. https://doi.org/10.1093/hmg/ddt357
Whiffin N, Dobbins SE, Hosking FJ, Palles C, Tenesa A, Wang Y et al. Deciphering the genetic architecture of low-penetrance susceptibility to colorectal cancer. Human Molecular Genetics. 2013 Dec;22(24):5075-5082. ddt357. https://doi.org/10.1093/hmg/ddt357
Whiffin, Nicola ; Dobbins, Sara E. ; Hosking, Fay J. ; Palles, Claire ; Tenesa, Albert ; Wang, Yufei ; Farrington, Susan M. ; Jones, Angela M. ; Broderick, Peter ; Campbell, Harry ; Newcomb, Polly A. ; Casey, Graham ; Conti, David V. ; Schumacher, Fred ; Gallinger, Steve ; Lindor, Noralane Morey ; Hopper, John ; Jenkins, Mark ; Dunlop, Malcolm G. ; Tomlinson, Ian P. ; Houlston, Richard S. / Deciphering the genetic architecture of low-penetrance susceptibility to colorectal cancer. In: Human Molecular Genetics. 2013 ; Vol. 22, No. 24. pp. 5075-5082.
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