Assessment of polygenic architecture and risk prediction based on common variants across fourteen cancers.
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Authors
Zhang, YD
Hurson, AN
Zhang, H
Choudhury, PP
Easton, DF
Milne, RL
Simard, J
Hall, P
Michailidou, K
Dennis, J
Schmidt, MK
Chang-Claude, J
Gharahkhani, P
Whiteman, D
Campbell, PT
Hoffmeister, M
Jenkins, M
Peters, U
Hsu, L
Gruber, SB
Casey, G
Schmit, SL
O'Mara, TA
Spurdle, AB
Thompson, DJ
Tomlinson, I
De Vivo, I
Landi, MT
Law, MH
Iles, MM
Demenais, F
Kumar, R
MacGregor, S
Bishop, DT
Ward, SV
Bondy, ML
Houlston, R
Wiencke, JK
Melin, B
Barnholtz-Sloan, J
Kinnersley, B
Wrensch, MR
Amos, CI
Hung, RJ
Brennan, P
McKay, J
Caporaso, NE
Berndt, SI
Birmann, BM
Camp, NJ
Kraft, P
Rothman, N
Slager, SL
Berchuck, A
Pharoah, PDP
Sellers, TA
Gayther, SA
Pearce, CL
Goode, EL
Schildkraut, JM
Moysich, KB
Amundadottir, LT
Jacobs, EJ
Klein, AP
Petersen, GM
Risch, HA
Stolzenberg-Solomon, RZ
Wolpin, BM
Li, D
Eeles, RA
Haiman, CA
Kote-Jarai, Z
Schumacher, FR
Al Olama, AA
Purdue, MP
Scelo, G
Dalgaard, MD
Greene, MH
Grotmol, T
Kanetsky, PA
McGlynn, KA
Nathanson, KL
Turnbull, C
Wiklund, F
Breast Cancer Association Consortium (BCAC),
Barrett’s and Esophageal Adenocarcinoma Consortium (BEACON),
Colon Cancer Family Registry (CCFR),
Transdisciplinary Studies of Genetic Variation in Colorectal Cancer (CORECT),
Endometrial Cancer Association Consortium (ECAC),
Genetics and Epidemiology of Colorectal Cancer Consortium (GECCO),
Melanoma Genetics Consortium (GenoMEL),
Glioma International Case-Control Study (GICC),
International Lung Cancer Consortium (ILCCO),
Integrative Analysis of Lung Cancer Etiology and Risk (INTEGRAL) Consortium,
International Consortium of Investigators Working on Non-Hodgkin’s Lymphoma Epidemiologic Studies (InterLymph),
Ovarian Cancer Association Consortium (OCAC),
Oral Cancer GWAS,
Pancreatic Cancer Case-Control Consortium (PanC4),
Pancreatic Cancer Cohort Consortium (PanScan),
Prostate Cancer Association Group to Investigate Cancer Associated Alterations in the Genome (PRACTICAL),
Renal Cancer GWAS,
Testicular Cancer Consortium (TECAC),
Chanock, SJ
Chatterjee, N
Garcia-Closas, M
Hurson, AN
Zhang, H
Choudhury, PP
Easton, DF
Milne, RL
Simard, J
Hall, P
Michailidou, K
Dennis, J
Schmidt, MK
Chang-Claude, J
Gharahkhani, P
Whiteman, D
Campbell, PT
Hoffmeister, M
Jenkins, M
Peters, U
Hsu, L
Gruber, SB
Casey, G
Schmit, SL
O'Mara, TA
Spurdle, AB
Thompson, DJ
Tomlinson, I
De Vivo, I
Landi, MT
Law, MH
Iles, MM
Demenais, F
Kumar, R
MacGregor, S
Bishop, DT
Ward, SV
Bondy, ML
Houlston, R
Wiencke, JK
Melin, B
Barnholtz-Sloan, J
Kinnersley, B
Wrensch, MR
Amos, CI
Hung, RJ
Brennan, P
McKay, J
Caporaso, NE
Berndt, SI
Birmann, BM
Camp, NJ
Kraft, P
Rothman, N
Slager, SL
Berchuck, A
Pharoah, PDP
Sellers, TA
Gayther, SA
Pearce, CL
Goode, EL
Schildkraut, JM
Moysich, KB
Amundadottir, LT
Jacobs, EJ
Klein, AP
Petersen, GM
Risch, HA
Stolzenberg-Solomon, RZ
Wolpin, BM
Li, D
Eeles, RA
Haiman, CA
Kote-Jarai, Z
Schumacher, FR
Al Olama, AA
Purdue, MP
Scelo, G
Dalgaard, MD
Greene, MH
Grotmol, T
Kanetsky, PA
McGlynn, KA
Nathanson, KL
Turnbull, C
Wiklund, F
Breast Cancer Association Consortium (BCAC),
Barrett’s and Esophageal Adenocarcinoma Consortium (BEACON),
Colon Cancer Family Registry (CCFR),
Transdisciplinary Studies of Genetic Variation in Colorectal Cancer (CORECT),
Endometrial Cancer Association Consortium (ECAC),
Genetics and Epidemiology of Colorectal Cancer Consortium (GECCO),
Melanoma Genetics Consortium (GenoMEL),
Glioma International Case-Control Study (GICC),
International Lung Cancer Consortium (ILCCO),
Integrative Analysis of Lung Cancer Etiology and Risk (INTEGRAL) Consortium,
International Consortium of Investigators Working on Non-Hodgkin’s Lymphoma Epidemiologic Studies (InterLymph),
Ovarian Cancer Association Consortium (OCAC),
Oral Cancer GWAS,
Pancreatic Cancer Case-Control Consortium (PanC4),
Pancreatic Cancer Cohort Consortium (PanScan),
Prostate Cancer Association Group to Investigate Cancer Associated Alterations in the Genome (PRACTICAL),
Renal Cancer GWAS,
Testicular Cancer Consortium (TECAC),
Chanock, SJ
Chatterjee, N
Garcia-Closas, M
Document Type
Journal Article
Date
2020-07-03
Date Accepted
2020-05-04
Date Available
Abstract
Genome-wide association studies (GWAS) have led to the identification of hundreds of susceptibility loci across cancers, but the impact of further studies remains uncertain. Here we analyse summary-level data from GWAS of European ancestry across fourteen cancer sites to estimate the number of common susceptibility variants (polygenicity) and underlying effect-size distribution. All cancers show a high degree of polygenicity, involving at a minimum of thousands of loci. We project that sample sizes required to explain 80% of GWAS heritability vary from 60,000 cases for testicular to over 1,000,000 cases for lung cancer. The maximum relative risk achievable for subjects at the 99th risk percentile of underlying polygenic risk scores (PRS), compared to average risk, ranges from 12 for testicular to 2.5 for ovarian cancer. We show that PRS have potential for risk stratification for cancers of breast, colon and prostate, but less so for others because of modest heritability and lower incidence.
Citation
Nature communications, 2020, 11 (1), pp. 3353 - ?
Source Title
Publisher
NATURE PORTFOLIO
ISSN
2041-1723
eISSN
2041-1723
Research Team
Cancer Genomics
Oncogenetics
Oncogenetics