Pleiotropic and sex-specific effects of cancer GWAS SNPs on melanoma risk in the population architecture using genomics and epidemiology (PAGE) study.
<h4>Background</h4>Several regions of the genome show pleiotropic associations with multiple cancers. We sought to evaluate whether 181 single-nucleotide polymorphisms previously associated with various cancers in genome-wide association studies were also associated with melanoma risk.&l...
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Public Library of Science (PLoS)
2015-01-01
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| Series: | PLoS ONE |
| Online Access: | https://doi.org/10.1371/journal.pone.0120491 |
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| author | Jonathan M Kocarnik S Lani Park Jiali Han Logan Dumitrescu Iona Cheng Lynne R Wilkens Fredrick R Schumacher Laurence Kolonel Chris S Carlson Dana C Crawford Robert J Goodloe Holli H Dilks Paxton Baker Danielle Richardson Tara C Matise José Luis Ambite Fengju Song Abrar A Qureshi Mingfeng Zhang David Duggan Carolyn Hutter Lucia Hindorff William S Bush Charles Kooperberg Loic Le Marchand Ulrike Peters |
| author_facet | Jonathan M Kocarnik S Lani Park Jiali Han Logan Dumitrescu Iona Cheng Lynne R Wilkens Fredrick R Schumacher Laurence Kolonel Chris S Carlson Dana C Crawford Robert J Goodloe Holli H Dilks Paxton Baker Danielle Richardson Tara C Matise José Luis Ambite Fengju Song Abrar A Qureshi Mingfeng Zhang David Duggan Carolyn Hutter Lucia Hindorff William S Bush Charles Kooperberg Loic Le Marchand Ulrike Peters |
| author_sort | Jonathan M Kocarnik |
| collection | DOAJ |
| description | <h4>Background</h4>Several regions of the genome show pleiotropic associations with multiple cancers. We sought to evaluate whether 181 single-nucleotide polymorphisms previously associated with various cancers in genome-wide association studies were also associated with melanoma risk.<h4>Methods</h4>We evaluated 2,131 melanoma cases and 20,353 controls from three studies in the Population Architecture using Genomics and Epidemiology (PAGE) study (EAGLE-BioVU, MEC, WHI) and two collaborating studies (HPFS, NHS). Overall and sex-stratified analyses were performed across studies.<h4>Results</h4>We observed statistically significant associations with melanoma for two lung cancer SNPs in the TERT-CLPTM1L locus (Bonferroni-corrected p<2.8x10-4), replicating known pleiotropic effects at this locus. In sex-stratified analyses, we also observed a potential male-specific association between prostate cancer risk variant rs12418451 and melanoma risk (OR=1.22, p=8.0x10-4). No other variants in our study were associated with melanoma after multiple comparisons adjustment (p>2.8e-4).<h4>Conclusions</h4>We provide confirmatory evidence of pleiotropic associations with melanoma for two SNPs previously associated with lung cancer, and provide suggestive evidence for a male-specific association with melanoma for prostate cancer variant rs12418451. This SNP is located near TPCN2, an ion transport gene containing SNPs which have been previously associated with hair pigmentation but not melanoma risk. Previous evidence provides biological plausibility for this association, and suggests a complex interplay between ion transport, pigmentation, and melanoma risk that may vary by sex. If confirmed, these pleiotropic relationships may help elucidate shared molecular pathways between cancers and related phenotypes. |
| format | Article |
| id | doaj-art-9adec7a737234dbaad5174faec8e438f |
| institution | OA Journals |
| issn | 1932-6203 |
| language | English |
| publishDate | 2015-01-01 |
| publisher | Public Library of Science (PLoS) |
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| series | PLoS ONE |
| spelling | doaj-art-9adec7a737234dbaad5174faec8e438f2025-08-20T02:09:14ZengPublic Library of Science (PLoS)PLoS ONE1932-62032015-01-01103e012049110.1371/journal.pone.0120491Pleiotropic and sex-specific effects of cancer GWAS SNPs on melanoma risk in the population architecture using genomics and epidemiology (PAGE) study.Jonathan M KocarnikS Lani ParkJiali HanLogan DumitrescuIona ChengLynne R WilkensFredrick R SchumacherLaurence KolonelChris S CarlsonDana C CrawfordRobert J GoodloeHolli H DilksPaxton BakerDanielle RichardsonTara C MatiseJosé Luis AmbiteFengju SongAbrar A QureshiMingfeng ZhangDavid DugganCarolyn HutterLucia HindorffWilliam S BushCharles KooperbergLoic Le MarchandUlrike Peters<h4>Background</h4>Several regions of the genome show pleiotropic associations with multiple cancers. We sought to evaluate whether 181 single-nucleotide polymorphisms previously associated with various cancers in genome-wide association studies were also associated with melanoma risk.<h4>Methods</h4>We evaluated 2,131 melanoma cases and 20,353 controls from three studies in the Population Architecture using Genomics and Epidemiology (PAGE) study (EAGLE-BioVU, MEC, WHI) and two collaborating studies (HPFS, NHS). Overall and sex-stratified analyses were performed across studies.<h4>Results</h4>We observed statistically significant associations with melanoma for two lung cancer SNPs in the TERT-CLPTM1L locus (Bonferroni-corrected p<2.8x10-4), replicating known pleiotropic effects at this locus. In sex-stratified analyses, we also observed a potential male-specific association between prostate cancer risk variant rs12418451 and melanoma risk (OR=1.22, p=8.0x10-4). No other variants in our study were associated with melanoma after multiple comparisons adjustment (p>2.8e-4).<h4>Conclusions</h4>We provide confirmatory evidence of pleiotropic associations with melanoma for two SNPs previously associated with lung cancer, and provide suggestive evidence for a male-specific association with melanoma for prostate cancer variant rs12418451. This SNP is located near TPCN2, an ion transport gene containing SNPs which have been previously associated with hair pigmentation but not melanoma risk. Previous evidence provides biological plausibility for this association, and suggests a complex interplay between ion transport, pigmentation, and melanoma risk that may vary by sex. If confirmed, these pleiotropic relationships may help elucidate shared molecular pathways between cancers and related phenotypes.https://doi.org/10.1371/journal.pone.0120491 |
| spellingShingle | Jonathan M Kocarnik S Lani Park Jiali Han Logan Dumitrescu Iona Cheng Lynne R Wilkens Fredrick R Schumacher Laurence Kolonel Chris S Carlson Dana C Crawford Robert J Goodloe Holli H Dilks Paxton Baker Danielle Richardson Tara C Matise José Luis Ambite Fengju Song Abrar A Qureshi Mingfeng Zhang David Duggan Carolyn Hutter Lucia Hindorff William S Bush Charles Kooperberg Loic Le Marchand Ulrike Peters Pleiotropic and sex-specific effects of cancer GWAS SNPs on melanoma risk in the population architecture using genomics and epidemiology (PAGE) study. PLoS ONE |
| title | Pleiotropic and sex-specific effects of cancer GWAS SNPs on melanoma risk in the population architecture using genomics and epidemiology (PAGE) study. |
| title_full | Pleiotropic and sex-specific effects of cancer GWAS SNPs on melanoma risk in the population architecture using genomics and epidemiology (PAGE) study. |
| title_fullStr | Pleiotropic and sex-specific effects of cancer GWAS SNPs on melanoma risk in the population architecture using genomics and epidemiology (PAGE) study. |
| title_full_unstemmed | Pleiotropic and sex-specific effects of cancer GWAS SNPs on melanoma risk in the population architecture using genomics and epidemiology (PAGE) study. |
| title_short | Pleiotropic and sex-specific effects of cancer GWAS SNPs on melanoma risk in the population architecture using genomics and epidemiology (PAGE) study. |
| title_sort | pleiotropic and sex specific effects of cancer gwas snps on melanoma risk in the population architecture using genomics and epidemiology page study |
| url | https://doi.org/10.1371/journal.pone.0120491 |
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