Literature DB >> 34140035

Statistical genetics and polygenic risk score for precision medicine.

Takahiro Konuma1,2, Yukinori Okada3,4,5.   

Abstract

The prediction of disease risks is an essential part of personalized medicine, which includes early disease detection, prevention, and intervention. The polygenic risk score (PRS) has become the standard for quantifying genetic liability in predicting disease risks. PRS utilizes single-nucleotide polymorphisms (SNPs) with genetic risks elucidated by genome-wide association studies (GWASs) and is calculated as weighted sum scores of these SNPs with genetic risks using their effect sizes from GWASs as their weights. The utilities of PRS have been explored in many common diseases, such as cancer, coronary artery disease, obesity, and diabetes, and in various non-disease traits, such as clinical biomarkers. These applications demonstrated that PRS could identify a high-risk subgroup of these diseases as a predictive biomarker and provide information on modifiable risk factors driving health outcomes. On the other hand, there are several limitations to implementing PRSs in clinical practice, such as biased sensitivity for the ethnic background of PRS calculation and geographical differences even in the same population groups. Also, it remains unclear which method is the most suitable for the prediction with high accuracy among numerous PRS methods developed so far. Although further improvements of its comprehensiveness and generalizability will be needed for its clinical implementation in the future, PRS will be a powerful tool for therapeutic interventions and lifestyle recommendations in a wide range of diseases. Thus, it may ultimately improve the health of an entire population in the future.

Entities:  

Keywords:  Genome-wide association study; Polygenic risk score; Precision medicine; Statistical genomics

Year:  2021        PMID: 34140035     DOI: 10.1186/s41232-021-00172-9

Source DB:  PubMed          Journal:  Inflamm Regen        ISSN: 1880-8190


  24 in total

1.  Strategies for developing prediction models from genome-wide association studies.

Authors:  Jincao Wu; Ruth M Pfeiffer; Mitchell H Gail
Journal:  Genet Epidemiol       Date:  2013-10-25       Impact factor: 2.135

2.  Prediction of individual genetic risk to disease from genome-wide association studies.

Authors:  Naomi R Wray; Michael E Goddard; Peter M Visscher
Journal:  Genome Res       Date:  2007-09-04       Impact factor: 9.043

3.  Measuring missing heritability: inferring the contribution of common variants.

Authors:  David Golan; Eric S Lander; Saharon Rosset
Journal:  Proc Natl Acad Sci U S A       Date:  2014-11-24       Impact factor: 11.205

4.  Polygenic Risk Scores That Predict Common Diseases Using Millions of Single Nucleotide Polymorphisms: Is More, Better?

Authors:  A Cecile JW Janssens; Michael J Joyner
Journal:  Clin Chem       Date:  2019-02-26       Impact factor: 8.327

Review 5.  The personal and clinical utility of polygenic risk scores.

Authors:  Ali Torkamani; Nathan E Wineinger; Eric J Topol
Journal:  Nat Rev Genet       Date:  2018-09       Impact factor: 53.242

6.  The meaning and use of the area under a receiver operating characteristic (ROC) curve.

Authors:  J A Hanley; B J McNeil
Journal:  Radiology       Date:  1982-04       Impact factor: 11.105

Review 7.  Finding the missing heritability of complex diseases.

Authors:  Teri A Manolio; Francis S Collins; Nancy J Cox; David B Goldstein; Lucia A Hindorff; David J Hunter; Mark I McCarthy; Erin M Ramos; Lon R Cardon; Aravinda Chakravarti; Judy H Cho; Alan E Guttmacher; Augustine Kong; Leonid Kruglyak; Elaine Mardis; Charles N Rotimi; Montgomery Slatkin; David Valle; Alice S Whittemore; Michael Boehnke; Andrew G Clark; Evan E Eichler; Greg Gibson; Jonathan L Haines; Trudy F C Mackay; Steven A McCarroll; Peter M Visscher
Journal:  Nature       Date:  2009-10-08       Impact factor: 49.962

Review 8.  Developing and evaluating polygenic risk prediction models for stratified disease prevention.

Authors:  Nilanjan Chatterjee; Jianxin Shi; Montserrat García-Closas
Journal:  Nat Rev Genet       Date:  2016-05-03       Impact factor: 53.242

Review 9.  10 Years of GWAS Discovery: Biology, Function, and Translation.

Authors:  Peter M Visscher; Naomi R Wray; Qian Zhang; Pamela Sklar; Mark I McCarthy; Matthew A Brown; Jian Yang
Journal:  Am J Hum Genet       Date:  2017-07-06       Impact factor: 11.025

Review 10.  Tutorial: a guide to performing polygenic risk score analyses.

Authors:  Shing Wan Choi; Timothy Shin-Heng Mak; Paul F O'Reilly
Journal:  Nat Protoc       Date:  2020-07-24       Impact factor: 13.491

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  2 in total

1.  snpQT: flexible, reproducible, and comprehensive quality control and imputation of genomic data.

Authors:  Christina Vasilopoulou; Benjamin Wingfield; Andrew P Morris; William Duddy
Journal:  F1000Res       Date:  2021-07-14

2.  Polygenic risk score for embryo selection-not ready for prime time.

Authors:  Alex Polyakov; David J Amor; Julian Savulescu; Christopher Gyngell; Ektoras X Georgiou; Vanessa Ross; Yossi Mizrachi; Genia Rozen
Journal:  Hum Reprod       Date:  2022-09-30       Impact factor: 6.353

  2 in total

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