Literature DB >> 35451785

From Genotype to Phenotype: Polygenic Prediction of Complex Human Traits.

Timothy G Raben1, Louis Lello1,2, Erik Widen1, Stephen D H Hsu3,4.   

Abstract

Decoding the genome confers the capability to predict characteristics of the organism (phenotype) from DNA (genotype). We describe the present status and future prospects of genomic prediction of complex traits in humans. Some highly heritable complex phenotypes such as height and other quantitative traits can already be predicted with reasonable accuracy from DNA alone. For many diseases, including important common conditions such as coronary artery disease, breast cancer, type I and II diabetes, individuals with outlier polygenic scores (e.g., top few percent) have been shown to have 5 or even 10 times higher risk than average. Several psychiatric conditions such as schizophrenia and autism also fall into this category. We discuss related topics such as the genetic architecture of complex traits, sibling validation of polygenic scores, and applications to adult health, in vitro fertilization (embryo selection), and genetic engineering.
© 2022. The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature.

Entities:  

Keywords:  Complex trait prediction; Genetic engineering; Genomics; In vitro fertilization; PRS

Mesh:

Year:  2022        PMID: 35451785     DOI: 10.1007/978-1-0716-2205-6_15

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN: 1064-3745


  92 in total

1.  Initial sequencing and analysis of the human genome.

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Journal:  Nature       Date:  2001-02-15       Impact factor: 49.962

2.  GCTA: a tool for genome-wide complex trait analysis.

Authors:  Jian Yang; S Hong Lee; Michael E Goddard; Peter M Visscher
Journal:  Am J Hum Genet       Date:  2010-12-17       Impact factor: 11.025

3.  PRSice-2: Polygenic Risk Score software for biobank-scale data.

Authors:  Shing Wan Choi; Paul F O'Reilly
Journal:  Gigascience       Date:  2019-07-01       Impact factor: 6.524

4.  Modeling Linkage Disequilibrium Increases Accuracy of Polygenic Risk Scores.

Authors:  Bjarni J Vilhjálmsson; Jian Yang; Hilary K Finucane; Alexander Gusev; Sara Lindström; Stephan Ripke; Giulio Genovese; Po-Ru Loh; Gaurav Bhatia; Ron Do; Tristan Hayeck; Hong-Hee Won; Sekar Kathiresan; Michele Pato; Carlos Pato; Rulla Tamimi; Eli Stahl; Noah Zaitlen; Bogdan Pasaniuc; Gillian Belbin; Eimear E Kenny; Mikkel H Schierup; Philip De Jager; Nikolaos A Patsopoulos; Steve McCarroll; Mark Daly; Shaun Purcell; Daniel Chasman; Benjamin Neale; Michael Goddard; Peter M Visscher; Peter Kraft; Nick Patterson; Alkes L Price
Journal:  Am J Hum Genet       Date:  2015-10-01       Impact factor: 11.025

5.  The sequence of the human genome.

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Journal:  Science       Date:  2001-02-16       Impact factor: 47.728

6.  PRSice: Polygenic Risk Score software.

Authors:  Jack Euesden; Cathryn M Lewis; Paul F O'Reilly
Journal:  Bioinformatics       Date:  2014-12-29       Impact factor: 6.937

7.  Effectiveness of shrinkage and variable selection methods for the prediction of complex human traits using data from distantly related individuals.

Authors:  Swetlana Berger; Paulino Pérez-Rodríguez; Yogasudha Veturi; Henner Simianer; Gustavo de los Campos
Journal:  Ann Hum Genet       Date:  2015-01-20       Impact factor: 1.670

8.  Regularized machine learning in the genetic prediction of complex traits.

Authors:  Sebastian Okser; Tapio Pahikkala; Antti Airola; Tapio Salakoski; Samuli Ripatti; Tero Aittokallio
Journal:  PLoS Genet       Date:  2014-11-13       Impact factor: 5.917

9.  From disease association to risk assessment: an optimistic view from genome-wide association studies on type 1 diabetes.

Authors:  Zhi Wei; Kai Wang; Hui-Qi Qu; Haitao Zhang; Jonathan Bradfield; Cecilia Kim; Edward Frackleton; Cuiping Hou; Joseph T Glessner; Rosetta Chiavacci; Charles Stanley; Dimitri Monos; Struan F A Grant; Constantin Polychronakos; Hakon Hakonarson
Journal:  PLoS Genet       Date:  2009-10-09       Impact factor: 5.917

10.  Exploiting SNP correlations within random forest for genome-wide association studies.

Authors:  Vincent Botta; Gilles Louppe; Pierre Geurts; Louis Wehenkel
Journal:  PLoS One       Date:  2014-04-02       Impact factor: 3.240

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