Fine-mapping the HOXB region detects common variants tagging a rare coding allele : evidence for synthetic association in prostate cancer
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13/02/2014
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Resumo |
The HOXB13 gene has been implicated in prostate cancer (PrCa) susceptibility. We performed a high resolution fine-mapping analysis to comprehensively evaluate the association between common genetic variation across the HOXB genetic locus at 17q21 and PrCa risk. This involved genotyping 700 SNPs using a custom Illumina iSelect array (iCOGS) followed by imputation of 3195 SNPs in 20,440 PrCa cases and 21,469 controls in The PRACTICAL consortium. We identified a cluster of highly correlated common variants situated within or closely upstream of HOXB13 that were significantly associated with PrCa risk, described by rs117576373 (OR 1.30, P = 2.62×10(-14)). Additional genotyping, conditional regression and haplotype analyses indicated that the newly identified common variants tag a rare, partially correlated coding variant in the HOXB13 gene (G84E, rs138213197), which has been identified recently as a moderate penetrance PrCa susceptibility allele. The potential for GWAS associations detected through common SNPs to be driven by rare causal variants with higher relative risks has long been proposed; however, to our knowledge this is the first experimental evidence for this phenomenon of synthetic association contributing to cancer susceptibility. |
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application/pdf |
Identificador | |
Publicador |
Public Library of Science |
Relação |
http://eprints.qut.edu.au/77730/1/22_Saunders_Dadaey_Fine_Mapping_HOXB.pdf DOI:10.1371/journal.pgen.1004129 Saunders, Edward J., Dadaev, Tokhir, Leongamornlert, Daniel A., Jugurnauth-Little, Sarah, Tymrakiewicz, Malgorzata, Wiklund, Fredrik, Al Olama, Ali Amin, Benlloch, Sara, Neal, David E., Hamdy, Freddie C., Donovan, Jenny L., Giles, Graham G., Severi, Gianluca, Gronberg, Henrik, Aly, Markus, Haiman, Christopher A., Schumacher, Fredrick, Henderson, Brian E., Lindstrom, Sara, Kraft, Peter, Hunter, David J., Gapstur, Susan, Chanock, Stephen, Berndt, Sonja I., Albanes, Demetrius, Andriole, Gerald, Schleutker, Johanna, Weischer, Maren, Nordestgaard, Børge G., Canzian, Federico, Campa, Daniele, Riboli, Elio, Key, Tim J., Travis, Ruth C., Ingles, Sue A., John, Esther M., Hayes, Richard B., Pharoah, Paul, Khaw, Kay-Tee, Stanford, Janet L., Ostrander, Elaine A., Signorello, Lisa B., Thibodeau, Stephen N., Schaid, Daniel, Maier, Christiane, Kibel, Adam S., Cybulski, Cezary, Cannon-Albright, Lisa, Brenner, Hermann, Park, Jong Y., Kaneva, Radka, Batra, Jyotsna, Clements, Judith A., Teixeira, Manuel R., Xu, Jianfeng, Mikropoulos, Christos, Goh, Chee, Govindasami, Koveela, Guy, Michelle, Wilkinson, Rosemary A., Sawyer, Emma J., Morgan, Angela, Easton, Douglas F., Muir, Ken, Eeles, Rosalind A., & Kote-Jarai, Zsofia (2014) Fine-mapping the HOXB region detects common variants tagging a rare coding allele : evidence for synthetic association in prostate cancer. PLoS Genetics, 10(2), e1004129. |
Direitos |
This is an open-access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose. The work is made available under the Creative Commons CC0 public domain dedication. |
Fonte |
School of Biomedical Sciences; Faculty of Health; Institute of Health and Biomedical Innovation |
Palavras-Chave | #111201 Cancer Cell Biology #111203 Cancer Genetics #Fine genome mapping #HOXB Region #Rare Coding Allele #Synthetic Association #Prostate Cancer |
Tipo |
Journal Article |