Table 1. GWAS data and reference genes for the seven diseases tested in this study.

Disease name	GWAS data sources*	# SNPs	# Cohorts	Sources of reference disease genes$	# Disease genes
Alzheimer's disease (ALZ)	IGAP	7 055 882	25 580 cases	OMIM, DO	406
			48 466 controls
Coronary artery disease (CAD)	CARDIoGRAMplusC4D	2 420 361	22 233 cases	OMIM, DO, CADgene	678
			64 762 controls
Crohn's disease (CD)	IIBDGC	12 255 197	22 027 cases	OMIM, DO	182
			29 082 controls
Rheumatoid arthritis (RA)	BIRAC	2 556 272	12 307 cases	OMIM, DO, RADB	941
			28 975 controls
Schizophrenia (SZ)	PGC	9 444 232	36 989 cases	OMIM, DO, SZGene	1155
			113 075 controls
Type 2 diabetes (T2D)	DIAGRAM	2 473 442	34 840 cases	OMIM, DO, T2DGADB	615
			114 981 controls
Ulcerative colitis (UC)	IIBDGC	12 276 506	16 315 cases	OMIM, DO	204
			32 635 controls

*GWAS data sources:

IGAP (The International Genomics of Alzheimer's Project (IGAP): http://web.pasteur-lille.fr/en/recherche/u744/igap/igap_download.php

CARDIoGRAMplusC4D (Coronary ARtery DIsease Genome-wide Replication and Meta-analysis plus Coronary artery Disease Genetics): http://www.cardiogramplusc4d.org

IIBDGC (International Inflammatory Bowel Disease Genetics Consortium): https://www.ibdgenetics.org

BIRAC (Biologics in RA Control) Consortium: (http://www.broadinstitute.org/ftp/pub/rheumatoid_arthritis/Stahl_etal_2010NG)

PGC (Psychiatric Genomics Consortium): https://www.med.unc.edu/pgc

DIAGRAM (DIAbetes Genetics Replication And Meta-analysis): http://diagram-consortium.org

^$Sources of reference disease genes

OMIM (Online Mendelian Inheritance in Man): http://omim.org

DO (Disease Ontology): http://disease-ontology.org)

CADgeneDB (Coronary Artery Disease Gene Database): http://www.bioguo.org/CADgene/

RADB (a database of rheumatoid arthritis-related polymorphisms): http://www.bioapp.org/RADB/

SZGene (SchizophreniaGene): http://www.szgene.org/

T2DGADB (type 2 diabetes genetic association database): http://www.diabetes.org