Literature DB >> 29915816

From Genotype to Phenotype: A Primer on the Functional Follow-up of Genome-Wide Association Studies in Cardiovascular Disease.

Jennie Lin1,2, Kiran Musunuru3.   

Abstract

Genome-wide association studies (GWASs) have implicated many human genomic loci in the development of complex traits. The loci identified by these studies are potentially involved in novel pathways that contribute to disease pathophysiology. However, eventual therapeutic targeting of these pathways relies on bridging the gap between genetic association and function, a task that first requires validation of causal genetic variants, casual genes, and directionality of effect. Executing this task requires basic knowledge of interpreting GWAS results and prioritizing candidates for further study, in addition to understanding the experimental methods available for evaluating candidate variants. Here we review the basic genetic principles of genome-wide association studies, the computational and experimental tools used for identifying causal variants and genes, and salient illustrative examples of how cardiovascular loci have undergone functional investigation.

Entities:  

Keywords:  association studies; gene regulation; genetic techniques; genetic variation; genetics; genomics

Mesh:

Year:  2018        PMID: 29915816      PMCID: PMC6003539     

Source DB:  PubMed          Journal:  Circ Genom Precis Med        ISSN: 2574-8300


  74 in total

Review 1.  Beyond GWASs: illuminating the dark road from association to function.

Authors:  Stacey L Edwards; Jonathan Beesley; Juliet D French; Alison M Dunning
Journal:  Am J Hum Genet       Date:  2013-11-07       Impact factor: 11.025

Review 2.  The role of regulatory variation in complex traits and disease.

Authors:  Frank W Albert; Leonid Kruglyak
Journal:  Nat Rev Genet       Date:  2015-02-24       Impact factor: 53.242

Review 3.  Environmental Determinants of Cardiovascular Disease.

Authors:  Aruni Bhatnagar
Journal:  Circ Res       Date:  2017-07-07       Impact factor: 17.367

4.  Six new loci associated with blood low-density lipoprotein cholesterol, high-density lipoprotein cholesterol or triglycerides in humans.

Authors:  Sekar Kathiresan; Olle Melander; Candace Guiducci; Aarti Surti; Noël P Burtt; Mark J Rieder; Gregory M Cooper; Charlotta Roos; Benjamin F Voight; Aki S Havulinna; Björn Wahlstrand; Thomas Hedner; Dolores Corella; E Shyong Tai; Jose M Ordovas; Göran Berglund; Erkki Vartiainen; Pekka Jousilahti; Bo Hedblad; Marja-Riitta Taskinen; Christopher Newton-Cheh; Veikko Salomaa; Leena Peltonen; Leif Groop; David M Altshuler; Marju Orho-Melander
Journal:  Nat Genet       Date:  2008-01-13       Impact factor: 38.330

5.  Genetic Regulation of Adipose Gene Expression and Cardio-Metabolic Traits.

Authors:  Mete Civelek; Ying Wu; Calvin Pan; Chelsea K Raulerson; Arthur Ko; Aiqing He; Charles Tilford; Niyas K Saleem; Alena Stančáková; Laura J Scott; Christian Fuchsberger; Heather M Stringham; Anne U Jackson; Narisu Narisu; Peter S Chines; Kerrin S Small; Johanna Kuusisto; Brian W Parks; Päivi Pajukanta; Todd Kirchgessner; Francis S Collins; Peter S Gargalovic; Michael Boehnke; Markku Laakso; Karen L Mohlke; Aldons J Lusis
Journal:  Am J Hum Genet       Date:  2017-03-02       Impact factor: 11.025

6.  Analysis of Transcriptional Variability in a Large Human iPSC Library Reveals Genetic and Non-genetic Determinants of Heterogeneity.

Authors:  Ivan Carcamo-Orive; Gabriel E Hoffman; Paige Cundiff; Noam D Beckmann; Sunita L D'Souza; Joshua W Knowles; Achchhe Patel; Dimitri Papatsenko; Fahim Abbasi; Gerald M Reaven; Sean Whalen; Philip Lee; Mohammad Shahbazi; Marc Y R Henrion; Kuixi Zhu; Sven Wang; Panos Roussos; Eric E Schadt; Gaurav Pandey; Rui Chang; Thomas Quertermous; Ihor Lemischka
Journal:  Cell Stem Cell       Date:  2016-12-22       Impact factor: 25.269

7.  Systematic dissection and optimization of inducible enhancers in human cells using a massively parallel reporter assay.

Authors:  Alexandre Melnikov; Anand Murugan; Xiaolan Zhang; Tiberiu Tesileanu; Li Wang; Peter Rogov; Soheil Feizi; Andreas Gnirke; Curtis G Callan; Justin B Kinney; Manolis Kellis; Eric S Lander; Tarjei S Mikkelsen
Journal:  Nat Biotechnol       Date:  2012-02-26       Impact factor: 54.908

8.  A global reference for human genetic variation.

Authors:  Adam Auton; Lisa D Brooks; Richard M Durbin; Erik P Garrison; Hyun Min Kang; Jan O Korbel; Jonathan L Marchini; Shane McCarthy; Gil A McVean; Gonçalo R Abecasis
Journal:  Nature       Date:  2015-10-01       Impact factor: 49.962

9.  Circular non-coding RNA ANRIL modulates ribosomal RNA maturation and atherosclerosis in humans.

Authors:  Lesca M Holdt; Anika Stahringer; Kristina Sass; Garwin Pichler; Nils A Kulak; Wolfgang Wilfert; Alexander Kohlmaier; Andreas Herbst; Bernd H Northoff; Alexandros Nicolaou; Gabor Gäbel; Frank Beutner; Markus Scholz; Joachim Thiery; Kiran Musunuru; Knut Krohn; Matthias Mann; Daniel Teupser
Journal:  Nat Commun       Date:  2016-08-19       Impact factor: 14.919

10.  Integrative analysis of 111 reference human epigenomes.

Authors:  Anshul Kundaje; Wouter Meuleman; Jason Ernst; Misha Bilenky; Angela Yen; Alireza Heravi-Moussavi; Pouya Kheradpour; Zhizhuo Zhang; Jianrong Wang; Michael J Ziller; Viren Amin; John W Whitaker; Matthew D Schultz; Lucas D Ward; Abhishek Sarkar; Gerald Quon; Richard S Sandstrom; Matthew L Eaton; Yi-Chieh Wu; Andreas R Pfenning; Xinchen Wang; Melina Claussnitzer; Yaping Liu; Cristian Coarfa; R Alan Harris; Noam Shoresh; Charles B Epstein; Elizabeta Gjoneska; Danny Leung; Wei Xie; R David Hawkins; Ryan Lister; Chibo Hong; Philippe Gascard; Andrew J Mungall; Richard Moore; Eric Chuah; Angela Tam; Theresa K Canfield; R Scott Hansen; Rajinder Kaul; Peter J Sabo; Mukul S Bansal; Annaick Carles; Jesse R Dixon; Kai-How Farh; Soheil Feizi; Rosa Karlic; Ah-Ram Kim; Ashwinikumar Kulkarni; Daofeng Li; Rebecca Lowdon; GiNell Elliott; Tim R Mercer; Shane J Neph; Vitor Onuchic; Paz Polak; Nisha Rajagopal; Pradipta Ray; Richard C Sallari; Kyle T Siebenthall; Nicholas A Sinnott-Armstrong; Michael Stevens; Robert E Thurman; Jie Wu; Bo Zhang; Xin Zhou; Arthur E Beaudet; Laurie A Boyer; Philip L De Jager; Peggy J Farnham; Susan J Fisher; David Haussler; Steven J M Jones; Wei Li; Marco A Marra; Michael T McManus; Shamil Sunyaev; James A Thomson; Thea D Tlsty; Li-Huei Tsai; Wei Wang; Robert A Waterland; Michael Q Zhang; Lisa H Chadwick; Bradley E Bernstein; Joseph F Costello; Joseph R Ecker; Martin Hirst; Alexander Meissner; Aleksandar Milosavljevic; Bing Ren; John A Stamatoyannopoulos; Ting Wang; Manolis Kellis
Journal:  Nature       Date:  2015-02-19       Impact factor: 69.504

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  5 in total

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Journal:  Clin J Am Soc Nephrol       Date:  2020-06-08       Impact factor: 8.237

2.  Multi-Omic Approaches to Identify Genetic Factors in Metabolic Syndrome.

Authors:  Karen C Clark; Anne E Kwitek
Journal:  Compr Physiol       Date:  2021-12-29       Impact factor: 8.915

Review 3.  Evolutionary genetics of skin pigmentation in African populations.

Authors:  Yuanqing Feng; Michael A McQuillan; Sarah A Tishkoff
Journal:  Hum Mol Genet       Date:  2021-04-26       Impact factor: 6.150

4.  2018 George Lyman Duff Memorial Lecture: Genetics and Genomics of Coronary Artery Disease: A Decade of Progress.

Authors:  Ruth McPherson
Journal:  Arterioscler Thromb Vasc Biol       Date:  2019-08-29       Impact factor: 8.311

Review 5.  Transcription Factor KLF14 and Metabolic Syndrome.

Authors:  Qianyi Yang; Mete Civelek
Journal:  Front Cardiovasc Med       Date:  2020-05-27
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