Paul O'Reilly

I am an Associate Professor in Statistical Genetics at the Icahn School of Medicine at Mount Sinai NYC (bottom left in pic below). In order to gain insights into how the human genome evolves and gives rise to disease, my group develops Statistical Genetics methods and software in Genetic Epidemiology (eg. multi-trait GWAS: MultiPhen, Polygenic Risk Scores: PRSice) and Population Genetics (eg. detecting selection: Ped/Pop method, simulating inversions: invertFREGENE), while my applied work focuses on Psychiatric Genetics. 

Background: Having majored in Mathematics, I did my PhD at Imperial College London (2004-08) on methods for detecting selection in the genome, supervised by David Balding and co-supervised by Ewan Birney. After a postdoc working on applied and method development GWAS projects (w Marjo-Riitta Jarvelin and Lachlan Coin), I began a Lectureship at Imperial in 2011, before moving to the MRC SGDP Centre, IoPPN, King's College London in 2013 as Senior Lecturer and then Reader. In 2019 I moved to Mount Sinai NYC. 

**Hiring Postdocs**!! If you are interested in any of the following lab themes then contact me ( to discuss:

(1) Functional convergence of disease risk (along pathways)

(2) Inferring causal relationships among traits and diseases from genetics

(3) Bridging Population Genetics and Genetic Epidemiology

(4) Statistical Genetics of Alzheimer's disease

Mount Sinai is also a great place to make the step from postdoc to first faculty position.


Methods & Software

Selected Publications (*needs updating)

Plomin, R., Krapohl, E., O'Reilly, PF. 2016. Assortative Mating: A Missing Piece in the Jigsaw of Psychiatric Genetics. JAMA Psychiatry 73:323-4.

Euesden, J., Lewis, CM., O'Reilly, PF. 2015. PRSice: Polygenic Risk Score software. Bioinformatics 31:1466-8.

Asherson, P., O'Reilly, PF. 2015. Genetic Effects, Categorical Disorders and Quantitative Traits. J Am Acad Child Adolesc Psychiatry 54:702-3.

Seich al Basatena, NK., Hoggart, CJ., Coin, LJ., O'Reilly, PF. 2013. The effect of genomic inversions on the estimation of population genetic parameters from SNP data. Genetics. doi: 10.1534/genetics.112.145599

O'Reilly, PF. et al. 2012. MultiPhen: Joint model of multiple phenotypes can increase discovery in GWAS. PLoS ONE. 7:e34861.

Hoggart, CJ.*, O'Reilly, PF.* et al. 2012. Fine-scale Estimation of Location of Birth from Genome-wide SNP Data. Genetics. 190: 669-677.

O'Reilly, PF., Balding, DJ. 2011. Admixture provides new insights into recombination. Nature Genetics. 43, 819

Wain, LV.*, Verwoert, GC.*, O'Reilly, PF.*, et al. 2011. Genome-wide association study identifies six new loci influencing pulse pressure and mean arterial pressure.  Nature Genetics 43: 1005-1011

O'Reilly, PF., Coin, L., Hoggart, C. 2010. invertFREGENE: Software for simulating inversions in population genetics data. Bioinformatics. 26: 838-40

Pillas, D.*, Hoggart, CJ.*, Evans, D.*, O'Reilly, PF.*, et al. 2010. Genome-wide association study reveals multiple loci associated with primary tooth development. PLoS Genetics. 6(2): e1000856.

O'Reilly, PF., Birney, E., Balding, DJ. 2008. Confounding between recombination and selection, and the Ped/Pop method for detecting selection. Genome Research. 18: 1304-1313.

Selected Talks (*needs updating)

Genemappers, 2017. PRS highlight interplay between behaviour and psychiatry 

WCPG, 2015. Symposium Chair: Polygenic scores methods in Psychiatric Genetics

Bloomsbury Centre Seminar Series, 2013. Increasing statistical power in GWAS

ASHG, 2011. MultiPhen: Joint model of multiple phenotypes increases discovery in GWAS

EMGM, 2011. Joint modelling of multiple phenotypes in GWAS

ASHG, 2010. The simulation, detection, and effect of inversions in the human genome

MASAMB, 2009. invertHMM: Detecting inversions in the Human Genome from SNP data

HGV, 2008. invertHMM: Detecting inversions in the Human Genome from SNP data

IGES, 2007. Confounding between recombination and selection, & the Ped/Pop method...


I currently teach on, and am Module Leader for, the Statistical Genetics module on the MSc Genes Environment and Development and on the Summer School: Analysis of Genetic Association Studies at the MRC SGDP Centre, IoPPN, King's College London. Previously, at Imperial College London, I taught statistics & epidemiology on the Medicine Undergraduate course, and statistics and statistical genetics on the MSc Bioinformatics, MSc Modern Epidemiology and Masters in Public Health courses.

Other roles

I am organiser of the South of England Genetic Epidemiology Group (SEGEG),  Associate Editor for BMC Genomics, Deputy Programme Leader of the MSc Genes Environment and Development and a scientific director (along with Cathryn Lewis) of the Summer School: Analysis of Genetic Association Studies at the MRC SGDP Centre, IoPPN, King's College London.