Hub : Traits :

Osteoporosis (self-reported)

8 significantly associated models · 7 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	239954252	241470634	1	1	7.5e-08	5.3e-07	0.1070	90	GREM2
2	4	88199484	89590831	1	1	1.1e-09	1.2e-10	0.0041	80	SPP1
3	7	119935156	121634913	1	1	1.2e-10	1.1e-13	0.0002	75	CPED1
4	11	67533195	69154873	3	2	6.5e-09	9.6e-12	0.0008	76	GAL PPP6R3
5	12	53414010	53932834	1	1	1.2e-07	2.5e-07	0.2690	95	ESPL1

Pleiotropic Associations

Trait	chisq ratio	# genes⁺	# genes⁺⁺	% genes⁺⁺	corr	corr P	genes
Heel T-Score	148.50	6	6	13.3	-0.75	0.088	CPED1 ESPL1 GAL GREM2 PPP6R3 SPP1
Heel bone mineral density (BMD) T-score, automated (left)	103.39	6	6	13.3	-0.76	0.082	CPED1 ESPL1 GAL GREM2 PPP6R3 SPP1
Heel bone mineral density (BMD) T-score, automated (right)	102.43	6	4	8.9	-0.75	0.083	CPED1 ESPL1 GAL GREM2 PPP6R3 SPP1
Fractured/broken bones in last 5 years	22.49	2	1	2.2	0.00	1.000	CPED1 GREM2
Gout (self-reported)	11.90	1	1	2.2	0.00	1.000	SPP1
Medication: Allopurinol	10.09	1	1	2.2	0.00	1.000	SPP1
Whole body water mass	5.34	3	2	4.4	0.00	1.000	CPED1 GAL PPP6R3
Leg predicted mass (right)	5.31	3	2	4.4	0.00	1.000	CPED1 GAL PPP6R3
Trunk predicted mass	5.28	3	2	4.4	0.00	1.000	CPED1 GAL PPP6R3
Trunk fat-free mass	5.25	3	2	4.4	0.00	1.000	CPED1 GAL PPP6R3
Whole body fat-free mass	5.24	3	2	4.4	0.00	1.000	CPED1 GAL PPP6R3
Basal cell carcinoma (self-reported)	5.23	2	0	0.0	0.00	1.000	ESPL1 PPP6R3
Leg fat-free mass (right)	5.17	3	2	4.4	0.00	1.000	CPED1 GAL PPP6R3
Leg fat-free mass (left)	5.12	3	2	4.4	0.00	1.000	CPED1 GAL PPP6R3
Leg predicted mass (left)	5.12	3	2	4.4	0.00	1.000	CPED1 GAL PPP6R3
Supplements: Calcium	4.92	3	0	0.0	0.00	1.000	CPED1 ESPL1 SPP1
Basal metabolic rate	4.76	3	2	4.4	0.00	1.000	CPED1 GAL PPP6R3
Arm fat-free mass (right)	4.53	2	2	4.4	0.00	1.000	GAL PPP6R3
Arm predicted mass (right)	4.50	3	2	4.4	0.00	1.000	ESPL1 GAL PPP6R3
Arm predicted mass (left)	4.45	2	2	4.4	0.00	1.000	GAL PPP6R3
Arm fat-free mass (left)	4.37	2	2	4.4	0.00	1.000	GAL PPP6R3
Impedance of leg (left)	4.25	4	1	2.2	0.87	0.131	CPED1 GAL GREM2 PPP6R3
Impedance of leg (right)	3.82	3	1	2.2	0.00	1.000	CPED1 GAL PPP6R3
Sitting height	2.99	5	2	4.4	-0.92	0.029	CPED1 GAL GREM2 PPP6R3 SPP1
Peak expiratory flow (PEF)	2.96	2	0	0.0	0.00	1.000	GAL PPP6R3
Risk taking	2.95	1	0	0.0	0.00	1.000	ESPL1
Weight	2.88	3	1	2.2	0.00	1.000	CPED1 GAL PPP6R3
Forced expiratory volume in 1-second (FEV1)	2.88	2	1	2.2	0.00	1.000	GAL PPP6R3
Impedance of whole body	2.83	3	1	2.2	0.00	1.000	CPED1 GAL PPP6R3
Standing height	2.76	4	2	4.4	-0.96	0.045	GAL GREM2 PPP6R3 SPP1
Forced vital capacity (FVC)	2.75	2	1	2.2	0.00	1.000	GAL PPP6R3
Height	2.64	4	3	6.7	-0.96	0.037	GAL GREM2 PPP6R3 SPP1
High blood pressure (mother)	2.53	1	0	0.0	0.00	1.000	ESPL1
Fasting Glucose	2.52	1	0	0.0	0.00	1.000	GREM2
Taking other prescription medications	2.29	1	0	0.0	0.00	1.000	CPED1
Medication: Simvastatin	2.26	1	0	0.0	0.00	1.000	CPED1
Average weekly champagne plus white wine intake	2.26	1	0	0.0	0.00	1.000	GAL
Forced expiratory volume in 1-second (FEV1), Best measure	2.25	2	0	0.0	0.00	1.000	GAL PPP6R3
Forced vital capacity (FVC), Best measure	2.22	2	0	0.0	0.00	1.000	GAL PPP6R3
Comparative height size at age 10	2.19	3	1	2.2	0.00	1.000	GAL PPP6R3 SPP1
Waist Hip Ratio (WHR)	2.16	2	2	4.4	0.00	1.000	CPED1 PPP6R3
Noisy workplace	2.14	1	0	0.0	0.00	1.000	PPP6R3
Medication: Ibuprofen (e.g. Nurofen)	2.13	1	0	0.0	0.00	1.000	PPP6R3
Medication: Omeprazole (e.g. Zanprol)	2.08	1	0	0.0	0.00	1.000	CPED1
Comparative body size at age 10	2.03	1	0	0.0	0.00	1.000	PPP6R3
Impedance of arm (right)	1.99	2	1	2.2	0.00	1.000	GAL PPP6R3
Birth weight	1.94	1	0	0.0	0.00	1.000	PPP6R3
Schizophrenia vs Biploar Disorder	1.93	1	0	0.0	0.00	1.000	GAL
Alcohol intake versus 10 years previously	1.76	1	0	0.0	0.00	1.000	PPP6R3
Ever had bowel cancer screening	1.73	1	0	0.0	0.00	1.000	CPED1
Mouth/teeth dental problems: Dentures	1.66	1	0	0.0	0.00	1.000	SPP1
Pulse wave peak to peak time	1.66	1	0	0.0	0.00	1.000	ESPL1
Qualifications: O levels/GCSEs or equivalent	1.65	1	0	0.0	0.00	1.000	CPED1
Impedance of arm (left)	1.64	1	1	2.2	0.00	1.000	PPP6R3
Birth weight of first child	1.62	1	0	0.0	0.00	1.000	PPP6R3
Hypothyroidism/myxoedema (self-reported)	1.62	1	0	0.0	0.00	1.000	PPP6R3
Alcohol intake frequency.	1.54	1	0	0.0	0.00	1.000	PPP6R3
Forced expiratory volume in 1-second (FEV1), predicted	1.53	1	0	0.0	0.00	1.000	PPP6R3
Falls in the last year	1.49	1	0	0.0	0.00	1.000	CPED1
Medication for pain relief, constipation, heartburn	1.48	1	0	0.0	0.00	1.000	CPED1
Illnesses of mother	1.47	1	0	0.0	0.00	1.000	ESPL1
Alcohol drinker status: Previous	1.47	1	0	0.0	0.00	1.000	GREM2
Number of treatments/medications taken	1.39	1	0	0.0	0.00	1.000	CPED1
Medication: Blood pressure	1.39	1	0	0.0	0.00	1.000	CPED1
High cholesterol (Self-reported)	1.37	1	0	0.0	0.00	1.000	CPED1
Ulcerative Colitis	1.34	1	0	0.0	0.00	1.000	GREM2
Hayfever, allergic rhinitis or eczema	1.34	1	0	0.0	0.00	1.000	PPP6R3
Allergy	1.29	1	0	0.0	0.00	1.000	PPP6R3
Hip circumference	1.29	2	0	0.0	0.00	1.000	CPED1 PPP6R3
Pulse wave Arterial Stiffness index	1.25	1	0	0.0	0.00	1.000	ESPL1
Medication: Levothyroxine sodium	1.20	1	0	0.0	0.00	1.000	PPP6R3
BMI	1.15	3	0	0.0	0.00	1.000	CPED1 GAL PPP6R3
Hand grip strength (left)	1.12	1	0	0.0	0.00	1.000	PPP6R3
Blood Red Count	1.11	3	1	2.2	0.00	1.000	ESPL1 GREM2 PPP6R3
Age when periods started (menarche)	0.97	1	0	0.0	0.00	1.000	SPP1
Arm fat mass (left)	0.95	1	0	0.0	0.00	1.000	PPP6R3
Arm fat mass (right)	0.92	1	0	0.0	0.00	1.000	PPP6R3
Body mass index (BMI)	0.87	1	0	0.0	0.00	1.000	PPP6R3
Cardiovascular Disease	0.79	1	0	0.0	0.00	1.000	CPED1
Qualifications: College or University degree	0.72	1	0	0.0	0.00	1.000	PPP6R3
Blood Eosinophil Count	0.71	2	0	0.0	0.00	1.000	GAL PPP6R3
Lung FEV1/FVC ratio	0.69	1	0	0.0	0.00	1.000	CPED1
Lung FVC	0.66	1	0	0.0	0.00	1.000	PPP6R3
Hair Pigment	0.48	2	1	2.2	0.00	1.000	GAL PPP6R3
Blood Platelet Count	0.33	1	0	0.0	0.00	1.000	CPED1

Associations by panel

study	tissue	# hits	% hits/tests	avg chisq
GTEx	Brain Hippocampus	0	0.000	1.4
GTEx	Brain Putamen basal ganglia	0	0.000	1.4
GTEx	Adipose Visceral Omentum	0	0.000	1.3
GTEx	Artery Aorta	0	0.000	1.3
GTEx	Artery Tibial	1	0.027	1.3
GTEx	Brain Cerebellar Hemisphere	0	0.000	1.3
GTEx	Brain Cerebellum	0	0.000	1.3
GTEx	Brain Cortex	0	0.000	1.3
GTEx	Brain Frontal Cortex BA9	0	0.000	1.3
GTEx	Brain Nucleus accumbens basal ganglia	0	0.000	1.3
GTEx	Breast Mammary Tissue	0	0.000	1.3
GTEx	Cells Transformed fibroblasts	1	0.024	1.3
GTEx	Colon Transverse	0	0.000	1.3
GTEx	Esophagus Gastroesophageal Junction	0	0.000	1.3
GTEx	Esophagus Muscularis	0	0.000	1.3
GTEx	Heart Left Ventricle	0	0.000	1.3
GTEx	Liver	0	0.000	1.3
GTEx	Nerve Tibial	1	0.023	1.3
GTEx	Ovary	0	0.000	1.3
GTEx	Pituitary	0	0.000	1.3
GTEx	Skin Sun Exposed Lower leg	0	0.000	1.3
GTEx	Spleen	0	0.000	1.3
GTEx	Testis	0	0.000	1.3
GTEx	Uterus	0	0.000	1.3
NTR	Blood	0	0.000	1.3
ROSMAP	Brain Pre-frontal Cortex	2	0.046	1.3
The Cancer Genome Atlas	Bladder Urothelial Carcinoma	0	0.000	1.3
The Cancer Genome Atlas	Cervical Squamous Cell Carcinoma	0	0.000	1.3
The Cancer Genome Atlas	Glioblastoma Multiforme	0	0.000	1.3
The Cancer Genome Atlas	Kidney Renal Clear Cell Carcinoma	1	0.024	1.3
The Cancer Genome Atlas	Kidney Renal Papillary Cell Carcinoma	0	0.000	1.3
The Cancer Genome Atlas	Pancreatic Adenocarcinoma	0	0.000	1.3
The Cancer Genome Atlas	Pheochromocytoma and Paraganglioma	0	0.000	1.3
The Cancer Genome Atlas	Stomach Adenocarcinoma	0	0.000	1.3
The Cancer Genome Atlas	Uterine Corpus Endometrial Carcinoma	0	0.000	1.3
GTEx	Adipose Subcutaneous	0	0.000	1.2
GTEx	Adrenal Gland	0	0.000	1.2
GTEx	Artery Coronary	0	0.000	1.2
GTEx	Brain Caudate basal ganglia	0	0.000	1.2
GTEx	Brain Hypothalamus	0	0.000	1.2
GTEx	Breast Mammary Tissue (Male)	0	0.000	1.2
GTEx	Breast Mammary Tissue (Female)	0	0.000	1.2
GTEx	Cells EBV-transformed lymphocytes	0	0.000	1.2
GTEx	Colon Sigmoid	0	0.000	1.2
GTEx	Esophagus Mucosa	0	0.000	1.2
GTEx	Heart Atrial Appendage	0	0.000	1.2
GTEx	Lung	0	0.000	1.2
GTEx	Muscle Skeletal	0	0.000	1.2
GTEx	Pancreas	0	0.000	1.2
GTEx	Prostate	0	0.000	1.2
GTEx	Skin Not Sun Exposed Suprapubic	0	0.000	1.2
GTEx	Small Intestine Terminal Ileum	0	0.000	1.2
GTEx	Stomach	0	0.000	1.2
GTEx	Thyroid	0	0.000	1.2
GTEx	Vagina	0	0.000	1.2
GTEx	Whole Blood	0	0.000	1.2
METSIM	Adipose	0	0.000	1.2
YFS	Blood	0	0.000	1.2
CommonMind	Brain Pre-frontal Cortex	0	0.000	1.2
The Cancer Genome Atlas	Breast Invasive Carcinoma	1	0.023	1.2
The Cancer Genome Atlas	Colon Adenocarcinoma	0	0.000	1.2
The Cancer Genome Atlas	Esophageal Carcinoma	0	0.000	1.2
The Cancer Genome Atlas	Head and Neck Squamous Cell Carcinoma	0	0.000	1.2
The Cancer Genome Atlas	Brain Lower Grade Glioma	0	0.000	1.2
The Cancer Genome Atlas	Liver Hepatocellular Carcinoma	1	0.090	1.2
The Cancer Genome Atlas	Lung Adenocarcinoma	0	0.000	1.2
The Cancer Genome Atlas	Lung Squamous Cell Carcinoma	0	0.000	1.2
The Cancer Genome Atlas	Ovarian Serous Cystadenocarcinoma	0	0.000	1.2
The Cancer Genome Atlas	Prostate Adenocarcinoma	0	0.000	1.2
The Cancer Genome Atlas	Rectum Adenocarcinoma	0	0.000	1.2
The Cancer Genome Atlas	Soft Tissue Sarcoma	0	0.000	1.2
The Cancer Genome Atlas	Skin Cutaneous Melanoma	0	0.000	1.2
The Cancer Genome Atlas	Testicular Germ Cell Tumors	0	0.000	1.2
The Cancer Genome Atlas	Thyroid Carcinoma	0	0.000	1.2