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Grant Details

Grant Number: 5R00CA246063-04 Interpret this number
Primary Investigator: Darst, Burcu
Organization: Fred Hutchinson Cancer Center
Project Title: Integrating Genomics and Metabolomics to Develop Predictive Models of Prostate Cancer in Multiethnic Men
Fiscal Year: 2023


Abstract

PROJECT SUMMARY/ABSTRACT Prostate cancer (PCa) is the second leading cause of cancer death among American men, with men of African ancestry have the highest PCa incidence and mortality rates. While the causes of this notable health disparity are unknown, there is evidence of genetic contributions and it is likely that environmental factors contribute as well. However, most PCa research has focused on men of European descent, particularly genome-wide association studies (GWAS), which has resulted in polygenic models having poorer predictive value in non- Europeans. The overarching goal of this research is to identify genomic and metabolomic factors that contribute to PCa risk in multiethnic men. To facilitate the construction of a genome-wide multiethnic polygenic risk score (PRS), in the K99 phase of this research, Dr. Darst will develop a novel variant selection algorithm to identify informative variants among genome-wide data (Aim 1). She will then construct a multiethnic genome-wide PRS using a large multiethnic PCa sample (PRACTICAL, N=237,380) (Aim 2). This PRS will be developed on overall PCa (Aim 1A), aggressive PCa (Aim 2B), and age of PCa onset (Aim 2C) and is expected to lead to improved predictive value compared to a PRS of ~150 known variants and to a PRS developed using Europeans only. Dr. Darst's expertise in genetic epidemiology will be complemented with additional training in cancer epidemiology, advanced statistical genomics, and cancer health disparities received through coursework, seminars, conferences, and guidance provided by her expert mentoring team. In the R00 phase, Dr. Darst will initiate a new line of research the applies integrative techniques to investigate combined genomic and metabolomic factors influencing PCa risk. This will build directly upon the research and training received in the K99 period. She will identify genetically-regulated metabolites that could be causally associated with PCa in multiethnic populations (Aim 3). This will require developing a large multiethnic metabolomics imputation panel and using subsequent meta-analysis summary statistics to develop genome-wide multiethnic PRS for each investigated metabolite. These PRS will be used to impute metabolomics into the PRACTICAL consortium. A metabolome- wide association study will then be performed to identify imputed, or genetically-regulated, metabolite levels that are predictive of overall PCa or aggressive PCa. Using a subset of 1,186 African American men from the Multiethnic Cohort (MEC) and the Prostate, Lung, Colorectal, and Ovarian (PLCO) Cancer Screening Trial, Dr. Darst will investigate metabolites that could mediate the effects of genetic factors, including the PRS from Aim 2, on overall and aggressive PCa (Aim 4a). She will also use integrative techniques to identify genomic and metabolomic factors that distinguish subgroups of individuals with high PCa risk (Aim 4b). Results are expected to substantially improve our ability to detect high risk individuals who would benefit from earlier or more intensive PCa screening across multiethnic populations and provide novel biological mechanisms to target for preventative measures, likely reducing PCa mortality and the number of indolent PCa cases treated unnecessarily.



Publications

Polygenic Risk Score Modifies Prostate Cancer Risk of Pathogenic Variants in Men of African Ancestry.
Authors: Hughley R.W. , Matejcic M. , Song Z. , Sheng X. , Wan P. , Xia L. , Hart S.N. , Hu C. , Yadav S. , Lubmawa A. , et al. .
Source: Cancer research communications, 2023-12-14; 3(12), p. 2544-2550.
PMID: 38014910
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Characterizing prostate cancer risk through multi-ancestry genome-wide discovery of 187 novel risk variants.
Authors: Wang A. , Shen J. , Rodriguez A.A. , Saunders E.J. , Chen F. , Janivara R. , Darst B.F. , Sheng X. , Xu Y. , Chou A.J. , et al. .
Source: Nature genetics, 2023 Dec; 55(12), p. 2065-2074.
EPub date: 2023-11-09.
PMID: 37945903
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Metabolomic epidemiology offers insights into disease aetiology.
Authors: Fuller H. , Zhu Y. , Nicholas J. , Chatelaine H.A. , Drzymalla E.M. , Sarvestani A.K. , Julián-Serrano S. , Tahir U.A. , Sinnott-Armstrong N. , Raffield L.M. , et al. .
Source: Nature metabolism, 2023 Oct; 5(10), p. 1656-1672.
EPub date: 2023-10-23.
PMID: 37872285
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An epidemiological introduction to human metabolomic investigations.
Authors: Joshi A.D. , Rahnavard A. , Kachroo P. , Mendez K.M. , Lawrence W. , Julián-Serrano S. , Hua X. , Fuller H. , Sinnott-Armstrong N. , Tabung F.K. , et al. .
Source: Trends in endocrinology and metabolism: TEM, 2023 Sep; 34(9), p. 505-525.
EPub date: 2023-07-17.
PMID: 37468430
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Evaluating approaches for constructing polygenic risk scores for prostate cancer in men of African and European ancestry.
Authors: Darst B.F. , Shen J. , Madduri R.K. , Rodriguez A.A. , Xiao Y. , Sheng X. , Saunders E.J. , Dadaev T. , Brook M.N. , Hoffmann T.J. , et al. .
Source: American journal of human genetics, 2023-07-06; 110(7), p. 1200-1206.
EPub date: 2023-06-12.
PMID: 37311464
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Evaluating Approaches for Constructing Polygenic Risk Scores for Prostate Cancer in Men of African and European Ancestry.
Authors: Darst B.F. , Shen J. , Madduri R.K. , Rodriguez A.A. , Xiao Y. , Sheng X. , Saunders E.J. , Dadaev T. , Brook M.N. , Hoffmann T.J. , et al. .
Source: medRxiv : the preprint server for health sciences, 2023-05-15; , .
EPub date: 2023-05-15.
PMID: 37292833
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Clonal hematopoiesis and risk of prostate cancer in large samples of European ancestry men.
Authors: Wang A. , Xu Y. , Yu Y. , Nead K.T. , Kim T. , Xu K. , Dadaev T. , Saunders E. , Sheng X. , Wan P. , et al. .
Source: Human molecular genetics, 2023-01-13; 32(3), p. 489-495.
PMID: 36018819
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Association of Prostate-Specific Antigen Levels with Prostate Cancer Risk in a Multiethnic Population: Stability Over Time and Comparison with Polygenic Risk Score.
Authors: Chou A. , Darst B.F. , Wilkens L.R. , Marchand L.L. , Lilja H. , Conti D.V. , Haiman C.A. .
Source: Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology, 2022-12-05; 31(12), p. 2199-2207.
PMID: 36126957
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Including diverse and admixed populations in genetic epidemiology research.
Authors: Caliebe A. , Tekola-Ayele F. , Darst B.F. , Wang X. , Song Y.E. , Gui J. , Sebro R.A. , Balding D.J. , Saad M. , Dubé M.P. , et al. .
Source: Genetic epidemiology, 2022 Oct; 46(7), p. 347-371.
EPub date: 2022-07-16.
PMID: 35842778
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Validation of a multi-ancestry polygenic risk score and age-specific risks of prostate cancer: A meta-analysis within diverse populations.
Authors: Chen F. , Darst B.F. , Madduri R.K. , Rodriguez A.A. , Sheng X. , Rentsch C.T. , Andrews C. , Tang W. , Kibel A.S. , Plym A. , et al. .
Source: eLife, 2022-07-08; 11, .
EPub date: 2022-07-08.
PMID: 35801699
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A Rare Germline HOXB13 Variant Contributes to Risk of Prostate Cancer in Men of African Ancestry.
Authors: Darst B.F. , Hughley R. , Pfennig A. , Hazra U. , Fan C. , Wan P. , Sheng X. , Xia L. , Andrews C. , Chen F. , et al. .
Source: European urology, 2022 May; 81(5), p. 458-462.
EPub date: 2022-01-12.
PMID: 35031163
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Combined Effect of a Polygenic Risk Score and Rare Genetic Variants on Prostate Cancer Risk.
Authors: Darst B.F. , Sheng X. , Eeles R.A. , Kote-Jarai Z. , Conti D.V. , Haiman C.A. .
Source: European urology, 2021 Aug; 80(2), p. 134-138.
EPub date: 2021-05-01.
PMID: 33941403
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Findings from a Genetic Sequencing Investigation of Men with Familial and Aggressive Prostate Cancer.
Authors: Darst B.F. .
Source: European urology, 2021 Mar; 79(3), p. 362-363.
EPub date: 2020-09-29.
PMID: 32994065
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Trans-ancestry genome-wide association meta-analysis of prostate cancer identifies new susceptibility loci and informs genetic risk prediction.
Authors: Conti D.V. , Darst B.F. , Moss L.C. , Saunders E.J. , Sheng X. , Chou A. , Schumacher F.R. , Olama A.A.A. , Benlloch S. , Dadaev T. , et al. .
Source: Nature genetics, 2021 Jan; 53(1), p. 65-75.
EPub date: 2021-01-04.
PMID: 33398198
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Sign-based Shrinkage Based on an Asymmetric LASSO Penalty.
Authors: Kawaguchi E.S. , Darst B.F. , Wang K. , Conti D.V. .
Source: Journal of data science : JDS, 2021; 19(3), p. 429-449.
EPub date: 2021-06-02.
PMID: 35222618
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A Germline Variant at 8q24 Contributes to Familial Clustering of Prostate Cancer in Men of African Ancestry.
Authors: Darst B.F. , Wan P. , Sheng X. , Bensen J.T. , Ingles S.A. , Rybicki B.A. , Nemesure B. , John E.M. , Fowke J.H. , Stevens V.L. , et al. .
Source: European urology, 2020 Sep; 78(3), p. 316-320.
EPub date: 2020-05-12.
PMID: 32409115
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The Four-Kallikrein Panel Is Effective in Identifying Aggressive Prostate Cancer in a Multiethnic Population.
Authors: Darst B.F. , Chou A. , Wan P. , Pooler L. , Sheng X. , Vertosick E.A. , Conti D.V. , Wilkens L.R. , Le Marchand L. , Vickers A.J. , et al. .
Source: Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology, 2020 Jul; 29(7), p. 1381-1388.
EPub date: 2020-05-08.
PMID: 32385116
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