Hub : Traits :

Alzheimer’s Disease (including proxy)

253 significantly associated models · 74 unique genes.

Significant Loci

#	chr	p0	p1	# assoc genes	# joint genes	best TWAS P	best SNP P	cond SNP P	% var exp	joint genes
1	1	160452218	161885352	3	1	1.8e-09	8.4e-08	4.8e-01	98	FCER1G
2	1	206975221	208513728	1	1	9.2e-24	9.0e-24	2.7e-02	95	CR1
3	2	127113672	128561279	1	2	1.6e-19	2.5e-36	4.1e-19	50	BIN1
4	2	233227833	234815167	1	1	7.8e-10	2.4e-10	1.0e+00	100	INPP5D
5	6	46757276	48294046	2	1	7.9e-14	1.1e-12	1.4e-01	96	CD2AP
6	7	98879213	100979310	16	1	1.7e-19	2.9e-18	1.3e-01	97	PMS2L1
7	7	142447631	143874190	2	2	1.3e-08	2.5e-11	1.5e-04	68	EPHA1-AS1 ZYX
8	8	26471104	28014376	1	1	6.1e-15	1.4e-24	4.8e-27	-11	PTK2B
9	11	59239839	60768044	3	1	1.2e-14	1.1e-16	1.1e-03	84	MS4A2
10	11	84971275	86479920	1	1	4.3e-22	4.1e-32	1.3e-12	64	PICALM
11	14	52498111	53940700	1	1	4.4e-08	3.7e-08	1.3e-03	66	STYX
12	14	92541097	93210544	1	1	1.1e-09	2.1e-10	1.7e-02	86	SLC24A4
13	16	30154740	31860399	11	1	2.7e-10	3.2e-08	2.0e-01	95	MYST1
14	17	4041725	5725694	6	1	1.5e-10	1.3e-10	1.0e+00	100	C17orf87
15	17	60858059	62279811	1	1	4.9e-09	2.9e-08	1.0e+00	100	ACE
16	19	44190626	46967227	22	31	1.9e-197	1.7e-208	NaN	NaN	APOC1 APOC1P1 APOC2 APOC4 BLOC1S3 CEACAM19 CTB-179K24.3 GEMIN7 KLC3 PVR PVRL2 SIX5 TOMM40 TRAPPC6A VASP ZNF229 ZNF285
17	20	54289787	55733453	1	1	7.0e-08	1.0e-07	1.0e+00	100	CASS4

Pleiotropic Associations

Trait	chisq ratio	# genes⁺	# genes⁺⁺	% genes⁺⁺	corr	corr P	genes
Alzheimer’s Disease (in mother)	32.81	21	10	22.2	1.00	1.4e-32	APOC1 APOC1P1 APOC4 BIN1 BLOC1S3 CEACAM19 CR1 CTB-179K24.3 FCER1G GEMIN7 KLC3 MYST1 PICALM PMS2L1 PVR PVRL2 SLC24A4 TOMM40 TRAPPC6A VASP ZNF285
Alzheimer’s Disease (in father)	17.00	12	7	15.6	0.98	2.5e-12	ACE APOC1 APOC1P1 APOC4 C17orf87 CEACAM19 GEMIN7 PICALM PMS2L1 PVRL2 TOMM40 ZNF285
LDL Cholesterol	12.73	9	8	17.8	0.63	2.7e-02	APOC1 APOC4 CEACAM19 GEMIN7 KLC3 PVR PVRL2 TOMM40 ZNF285
High cholesterol (Self-reported)	5.29	6	4	8.9	0.93	2.1e-03	APOC4 CEACAM19 PVR PVRL2 TOMM40 ZNF285
Triglycerides	3.78	5	4	8.9	0.46	3.6e-01	APOC1 APOC4 MYST1 PVRL2 TOMM40
Cholesterol lowering medication	3.59	5	2	4.4	0.84	7.8e-02	APOC4 MYST1 PVRL2 TOMM40 ZNF285
Medication: Simvastatin	3.50	4	2	4.4	0.98	1.9e-02	CEACAM19 PVR PVRL2 TOMM40
Medication: Cholesterol lowering	2.93	2	2	4.4	0.00	1.0e+00	PVRL2 TOMM40
Medication: Atorvastatin	2.45	3	2	4.4	0.00	1.0e+00	PVRL2 TOMM40 ZNF285
Cardiovascular Disease	2.38	6	5	11.1	0.40	4.3e-01	ACE APOC4 MYST1 PVRL2 TOMM40 ZNF285
Average weekly fortified wine intake	2.13	1	0	0.0	0.00	1.0e+00	TOMM40
Diabetes diagnosed by doctor	2.11	3	0	0.0	0.00	1.0e+00	ACE APOC1 PVRL2
HDL Cholesterol	2.09	4	0	0.0	-0.54	3.5e-01	APOC1 APOC4 PVRL2 TOMM40
Medication for cholesterol, blood pressure or diabetes	1.95	3	1	2.2	0.00	1.0e+00	ACE PMS2L1 TOMM40
Medication: Metformin	1.89	2	0	0.0	0.00	1.0e+00	APOC1 PVRL2
Blood Platelet Count	1.82	17	6	13.3	0.00	9.9e-01	APOC1 APOC4 BLOC1S3 C17orf87 CD2AP CEACAM19 CTB-179K24.3 FCER1G KLC3 PICALM PTK2B PVR PVRL2 STYX TOMM40 VASP ZNF285
Diabetes (self-reported)	1.78	1	0	0.0	0.00	1.0e+00	APOC1
Illnesses of father: None of the above (group 1)	1.78	1	0	0.0	0.00	1.0e+00	TOMM40
High blood pressure (siblings)	1.76	1	1	2.2	0.00	1.0e+00	MYST1
Type 2 Diabetes (T2D) (2018)	1.68	2	0	0.0	0.00	1.0e+00	ACE PVRL2
Loud music exposure frequency	1.58	1	0	0.0	0.00	1.0e+00	TOMM40
Diabetes (mother)	1.57	1	0	0.0	0.00	1.0e+00	PVRL2
Medication for cholesterol	1.57	3	0	0.0	0.00	1.0e+00	ACE MYST1 PVRL2
Hand grip strength (right)	1.55	3	0	0.0	0.00	1.0e+00	APOC1P1 PVRL2 STYX
Blood White Count	1.48	11	8	17.8	-0.22	4.6e-01	APOC1 APOC1P1 APOC4 C17orf87 CR1 FCER1G MS4A2 PTK2B PVR PVRL2 TOMM40
Waist circumference	1.47	3	1	2.2	0.00	1.0e+00	MYST1 PTK2B PVRL2
Had major operations	1.47	1	0	0.0	0.00	1.0e+00	PTK2B
Medication: Blood pressure	1.46	2	1	2.2	0.00	1.0e+00	ACE PMS2L1
Leg fat mass (left)	1.46	2	1	2.2	0.00	1.0e+00	C17orf87 MYST1
Hand grip strength (left)	1.45	3	0	0.0	0.00	1.0e+00	APOC1P1 MYST1 PVRL2
Arm fat mass (right)	1.44	3	1	2.2	0.00	1.0e+00	C17orf87 MYST1 PVRL2
Leg fat mass (right)	1.43	2	1	2.2	0.00	1.0e+00	C17orf87 MYST1
BMI	1.41	6	1	2.2	-0.75	8.4e-02	C17orf87 MYST1 PTK2B PVRL2 STYX TOMM40
Vascular/heart problems diagnosed by doctor	1.41	3	2	4.4	0.00	1.0e+00	ACE MYST1 PTK2B
Hypertension (Self-reported)	1.40	2	2	4.4	0.00	1.0e+00	ACE MYST1
Arm fat mass (left)	1.38	3	1	2.2	0.00	1.0e+00	C17orf87 MYST1 PVRL2
Hip circumference	1.37	3	1	2.2	-0.90	9.8e-02	APOC4 MYST1 STYX
Illnesses of father: High blood pressure	1.36	1	0	0.0	0.00	1.0e+00	ACE
High blood pressure	1.35	2	2	4.4	0.00	1.0e+00	ACE MYST1
Weight	1.35	5	1	2.2	-0.84	1.8e-02	APOC1 APOC4 C17orf87 MYST1 STYX
Body mass index (BMI)	1.34	3	1	2.2	0.00	1.0e+00	C17orf87 MYST1 PVRL2
Whole body fat mass	1.34	2	1	2.2	0.00	1.0e+00	MYST1 PVRL2
Allergy or Eczema	1.28	2	0	0.0	0.00	1.0e+00	FCER1G PVRL2
Trunk fat mass	1.26	3	1	2.2	0.00	1.0e+00	APOC4 MYST1 PVRL2
Illnesses of siblings	1.26	1	0	0.0	0.00	1.0e+00	MYST1
Arm fat percentage (right)	1.26	3	1	2.2	0.00	1.0e+00	ACE MYST1 PVRL2
Leg fat percentage (left)	1.25	1	1	2.2	0.00	1.0e+00	MYST1
Mouth/teeth dental problems: Mouth ulcers	1.24	1	0	0.0	0.00	1.0e+00	FCER1G
Number of treatments/medications taken	1.23	1	0	0.0	0.00	1.0e+00	ACE
Respiratory disease	1.22	1	0	0.0	0.00	1.0e+00	PVRL2
Eye problems/disorders: None of the above	1.22	1	0	0.0	0.00	1.0e+00	CASS4
Arm fat percentage (left)	1.22	3	1	2.2	0.00	1.0e+00	ACE MYST1 PVRL2
Blood Eosinophil Count	1.21	8	6	13.3	-0.27	4.8e-01	APOC1 APOC4 C17orf87 CEACAM19 FCER1G INPP5D MYST1 TOMM40
Body fat percentage	1.21	3	1	2.2	0.00	1.0e+00	MYST1 PTK2B PVRL2
Leg fat percentage (right)	1.21	2	1	2.2	0.00	1.0e+00	MYST1 PTK2B
Hayfever, allergic rhinitis or eczema	1.20	1	0	0.0	0.00	1.0e+00	PVRL2
Financial difficulties in last 2 years	1.20	1	0	0.0	0.00	1.0e+00	MYST1
Worrier / anxious feelings	1.19	1	0	0.0	0.00	1.0e+00	MYST1
Forced expiratory volume in 1-second (FEV1), predicted percentage	1.19	2	1	2.2	0.00	1.0e+00	MYST1 PVRL2
Medication: Blood pressure	1.17	2	1	2.2	0.00	1.0e+00	ACE MYST1
Chronotype (morning person)	1.16	1	0	0.0	0.00	1.0e+00	ZNF285
Birth weight	1.16	1	0	0.0	0.00	1.0e+00	PVRL2
Nervous feelings	1.14	1	1	2.2	0.00	1.0e+00	MYST1
Trunk fat percentage	1.12	2	1	2.2	0.00	1.0e+00	MYST1 PVRL2
Overall health rating	1.12	2	1	2.2	0.00	1.0e+00	MYST1 PVRL2
Neuroticism (Nagel 2018)	1.09	1	0	0.0	0.00	1.0e+00	MYST1
Worry (Nagel 2018)	1.09	1	1	2.2	0.00	1.0e+00	MYST1
Knee pain experienced in last month	1.08	1	0	0.0	0.00	1.0e+00	MYST1
Basal metabolic rate	1.07	5	2	4.4	-0.82	2.3e-02	APOC1 APOC2 APOC4 C17orf87 MYST1
Arm predicted mass (left)	1.07	4	2	4.4	-0.91	1.1e-02	APOC1 APOC2 APOC4 MYST1
Neuroticism	1.06	2	0	0.0	0.00	1.0e+00	CTB-179K24.3 MYST1
Medication for pain relief, constipation, heartburn	1.05	1	0	0.0	0.00	1.0e+00	ACE
Tense / 'highly strung'	1.04	1	0	0.0	0.00	1.0e+00	MYST1
Arm fat-free mass (left)	1.04	4	2	4.4	-0.88	5.1e-02	APOC2 APOC4 C17orf87 MYST1
Long-standing illness, disability or infirmity	1.03	1	0	0.0	0.00	1.0e+00	PVRL2
Asthma (self-reported)	1.02	1	0	0.0	0.00	1.0e+00	PVRL2
Asthma	1.00	1	0	0.0	0.00	1.0e+00	PVRL2
Heel T-Score	0.99	4	3	6.7	0.96	4.2e-02	MS4A2 MYST1 SIX5 VASP
Heel bone mineral density (BMD) T-score, automated (left)	0.99	1	1	2.2	0.00	1.0e+00	MS4A2
Pulse rate	0.99	1	0	0.0	0.00	1.0e+00	PMS2L1
Systolic Blood Pressure	0.98	6	2	4.4	-0.10	8.4e-01	ACE APOC1 APOC4 BIN1 STYX TOMM40
Crohns Disease (2017)	0.97	2	0	0.0	0.00	1.0e+00	BIN1 CASS4
Irritable Bowel Disease (IBD)	0.96	1	0	0.0	0.00	1.0e+00	CASS4
Leg predicted mass (left)	0.96	4	1	2.2	-0.84	3.8e-02	APOC1 APOC4 MYST1 STYX
Whole body fat-free mass	0.96	4	2	4.4	-0.93	7.4e-03	APOC1 APOC2 APOC4 MYST1
Leg fat-free mass (left)	0.95	3	1	2.2	-0.87	1.3e-01	APOC4 MYST1 STYX
Trunk fat-free mass	0.94	4	2	4.4	-0.94	5.1e-03	APOC1 APOC2 APOC4 MYST1
Leg fat-free mass (right)	0.94	6	2	4.4	-0.76	3.0e-02	APOC1 APOC2 APOC4 C17orf87 MYST1 STYX
Whole body water mass	0.94	4	2	4.4	-0.93	7.9e-03	APOC1 APOC2 APOC4 MYST1
Leg predicted mass (right)	0.94	6	1	2.2	-0.75	3.2e-02	APOC1 APOC2 APOC4 C17orf87 MYST1 STYX
Trunk predicted mass	0.93	4	2	4.4	-0.94	5.1e-03	APOC1 APOC2 APOC4 MYST1
Peak expiratory flow (PEF)	0.93	1	0	0.0	0.00	1.0e+00	PTK2B
Alcohol intake frequency.	0.92	1	1	2.2	0.00	1.0e+00	MYST1
Arm fat-free mass (right)	0.91	3	1	2.2	0.00	1.0e+00	APOC2 APOC4 MYST1
Fluid intelligence score	0.90	1	0	0.0	0.00	1.0e+00	PVRL2
Arm predicted mass (right)	0.88	2	1	2.2	0.00	1.0e+00	APOC4 MYST1
Medication: Bendroflumethiazide	0.88	1	0	0.0	0.00	1.0e+00	MYST1
Number of incorrect matches in round	0.87	1	1	2.2	0.00	1.0e+00	MYST1
Forced expiratory volume in 1-second (FEV1)	0.86	2	0	0.0	0.00	1.0e+00	MYST1 PVRL2
Diastolic blood pressure, automated reading	0.86	2	1	2.2	0.00	1.0e+00	ACE MYST1
Lung FVC	0.85	5	1	2.2	0.63	2.5e-01	APOC1P1 MYST1 PMS2L1 PVRL2 TOMM40
Commuting to job workplace: Cycle	0.85	1	0	0.0	0.00	1.0e+00	ZNF229
Forced vital capacity (FVC)	0.82	2	0	0.0	0.00	1.0e+00	MYST1 PVRL2
Forced expiratory volume in 1-second (FEV1), Best measure	0.80	2	1	2.2	0.00	1.0e+00	MYST1 PVRL2
Forced vital capacity (FVC), Best measure	0.80	2	0	0.0	0.00	1.0e+00	MYST1 PVRL2
Qualifications: College or University degree	0.80	2	0	0.0	0.00	1.0e+00	KLC3 TRAPPC6A
Heel bone mineral density (BMD) T-score, automated (right)	0.79	1	1	2.2	0.00	1.0e+00	MS4A2
Pulse rate, automated reading	0.76	1	1	2.2	0.00	1.0e+00	PMS2L1
Pain experienced in last month	0.76	1	0	0.0	0.00	1.0e+00	MYST1
Systolic blood pressure, automated reading	0.72	2	0	0.0	0.00	1.0e+00	BIN1 STYX
Lung FEV1/FVC ratio	0.69	3	1	2.2	0.00	1.0e+00	PMS2L1 PTK2B SIX5
Waist Hip Ratio (WHR)	0.66	2	0	0.0	0.00	1.0e+00	APOC1 FCER1G
Impedance of whole body	0.64	2	1	2.2	0.00	1.0e+00	BLOC1S3 MYST1
Impedance of arm (left)	0.63	1	0	0.0	0.00	1.0e+00	MYST1
Comparative body size at age 10	0.59	1	0	0.0	0.00	1.0e+00	MYST1
Impedance of arm (right)	0.58	3	0	0.0	0.00	1.0e+00	BLOC1S3 GEMIN7 MYST1
Height	0.56	9	5	11.1	-0.14	6.7e-01	ACE APOC1 APOC2 APOC4 CD2AP CEACAM19 GEMIN7 MYST1 PICALM
Standing height	0.56	5	2	4.4	-0.14	7.8e-01	APOC1 APOC2 APOC4 CD2AP PICALM
Comparative height size at age 10	0.55	3	0	0.0	0.00	1.0e+00	APOC2 APOC4 CD2AP
Blood Red Count	0.53	6	1	2.2	-0.58	2.3e-01	BLOC1S3 CTB-179K24.3 FCER1G KLC3 MYST1 PVRL2
Impedance of leg (right)	0.49	1	0	0.0	0.00	1.0e+00	MYST1
Impedance of leg (left)	0.49	1	0	0.0	0.00	1.0e+00	MYST1
Sitting height	0.36	1	0	0.0	0.00	1.0e+00	PICALM
Hair Pigment	0.18	2	1	2.2	0.00	1.0e+00	SLC24A4 TOMM40

Associations by panel

study	tissue	# hits	% hits/tests	avg chisq
The Cancer Genome Atlas	Kidney Renal Clear Cell Carcinoma	15	0.365	1.9
The Cancer Genome Atlas	Lung Squamous Cell Carcinoma	4	0.159	1.7
The Cancer Genome Atlas	Soft Tissue Sarcoma	1	0.093	1.7
The Cancer Genome Atlas	Uterine Corpus Endometrial Carcinoma	1	0.195	1.7
GTEx	Adipose Visceral Omentum	2	0.098	1.6
GTEx	Liver	5	0.696	1.6
GTEx	Skin Not Sun Exposed Suprapubic	6	0.244	1.6
The Cancer Genome Atlas	Brain Lower Grade Glioma	13	0.302	1.6
The Cancer Genome Atlas	Rectum Adenocarcinoma	4	0.575	1.6
The Cancer Genome Atlas	Testicular Germ Cell Tumors	5	0.391	1.6
GTEx	Adipose Subcutaneous	6	0.172	1.5
GTEx	Esophagus Muscularis	6	0.186	1.5
GTEx	Pituitary	4	0.359	1.5
GTEx	Stomach	4	0.275	1.5
GTEx	Thyroid	8	0.200	1.5
GTEx	Whole Blood	3	0.151	1.5
NTR	Blood	8	0.333	1.5
YFS	Blood	8	0.173	1.5
The Cancer Genome Atlas	Breast Invasive Carcinoma	12	0.272	1.5
The Cancer Genome Atlas	Colon Adenocarcinoma	2	0.097	1.5
The Cancer Genome Atlas	Glioblastoma Multiforme	2	0.195	1.5
The Cancer Genome Atlas	Head and Neck Squamous Cell Carcinoma	3	0.110	1.5
The Cancer Genome Atlas	Kidney Renal Papillary Cell Carcinoma	5	0.243	1.5
The Cancer Genome Atlas	Liver Hepatocellular Carcinoma	1	0.090	1.5
The Cancer Genome Atlas	Ovarian Serous Cystadenocarcinoma	4	0.250	1.5
The Cancer Genome Atlas	Prostate Adenocarcinoma	12	0.259	1.5
The Cancer Genome Atlas	Thyroid Carcinoma	7	0.136	1.5
GTEx	Adrenal Gland	2	0.137	1.4
GTEx	Artery Aorta	1	0.034	1.4
GTEx	Artery Coronary	2	0.169	1.4
GTEx	Artery Tibial	5	0.133	1.4
GTEx	Brain Cerebellar Hemisphere	1	0.067	1.4
GTEx	Brain Cerebellum	3	0.151	1.4
GTEx	Brain Nucleus accumbens basal ganglia	4	0.462	1.4
GTEx	Cells Transformed fibroblasts	8	0.191	1.4
GTEx	Colon Transverse	4	0.194	1.4
GTEx	Esophagus Gastroesophageal Junction	1	0.069	1.4
GTEx	Esophagus Mucosa	4	0.120	1.4
GTEx	Heart Atrial Appendage	1	0.063	1.4
GTEx	Heart Left Ventricle	1	0.065	1.4
GTEx	Lung	3	0.104	1.4
GTEx	Muscle Skeletal	2	0.069	1.4
GTEx	Nerve Tibial	8	0.185	1.4
GTEx	Ovary	1	0.110	1.4
GTEx	Skin Sun Exposed Lower leg	5	0.137	1.4
GTEx	Testis	2	0.063	1.4
GTEx	Uterus	0	0.000	1.4
GTEx	Vagina	1	0.157	1.4
METSIM	Adipose	4	0.087	1.4
ROSMAP	Brain Pre-frontal Cortex	5	0.114	1.4
CommonMind	Brain Pre-frontal Cortex	7	0.130	1.4
The Cancer Genome Atlas	Bladder Urothelial Carcinoma	1	0.060	1.4
The Cancer Genome Atlas	Cervical Squamous Cell Carcinoma	1	0.091	1.4
The Cancer Genome Atlas	Lung Adenocarcinoma	9	0.306	1.4
The Cancer Genome Atlas	Pancreatic Adenocarcinoma	4	0.240	1.4
The Cancer Genome Atlas	Pheochromocytoma and Paraganglioma	1	0.075	1.4
The Cancer Genome Atlas	Skin Cutaneous Melanoma	0	0.000	1.4
The Cancer Genome Atlas	Stomach Adenocarcinoma	3	0.178	1.4
GTEx	Brain Caudate basal ganglia	1	0.108	1.3
GTEx	Brain Frontal Cortex BA9	0	0.000	1.3
GTEx	Brain Hippocampus	0	0.000	1.3
GTEx	Brain Putamen basal ganglia	0	0.000	1.3
GTEx	Breast Mammary Tissue	1	0.051	1.3
GTEx	Breast Mammary Tissue (Male)	0	0.000	1.3
GTEx	Breast Mammary Tissue (Female)	0	0.000	1.3
GTEx	Cells EBV-transformed lymphocytes	1	0.070	1.3
GTEx	Colon Sigmoid	1	0.068	1.3
GTEx	Pancreas	1	0.061	1.3
GTEx	Prostate	1	0.120	1.3
GTEx	Small Intestine Terminal Ileum	0	0.000	1.3
GTEx	Spleen	1	0.071	1.3
The Cancer Genome Atlas	Esophageal Carcinoma	0	0.000	1.3
GTEx	Brain Cortex	1	0.097	1.2
GTEx	Brain Hypothalamus	0	0.000	1.2