TWAS hub - Ever used hormone-replacement therapy (HRT)

#	chr	p0	p1	# assoc genes	# joint genes	best TWAS P	best SNP P	cond SNP P	% var exp	joint genes
1	1	180228968	181688483	3	1	6.9e-09	1.2e-08	0.185	95	MR1
2	8	37686749	38101003	1	1	6.5e-08	3.7e-08	1.000	100	EIF4EBP1
3	19	55574907	56089353	1	1	1.0e-07	1.2e-08	0.038	87	TMEM150B
4	20	61269348	61742135	1	1	4.8e-08	4.7e-06	0.049	81	TCFL5

Trait	chisq ratio	# genes⁺	# genes⁺⁺	% genes⁺⁺	corr	corr P	genes
Had menopause	20.61	4	2	4.4	0.97	0.034	EIF4EBP1 MR1 TCFL5 TMEM150B
Medication for hormone replacement therapy	8.19	3	0	0.0	0.00	1.000	EIF4EBP1 MR1 TCFL5
Bilateral oophorectomy (both ovaries removed)	4.56	1	0	0.0	0.00	1.000	TMEM150B
Glaucoma (self-reported)	4.05	2	0	0.0	0.00	1.000	EIF4EBP1 TMEM150B
Breast Cancer	3.65	2	0	0.0	0.00	1.000	EIF4EBP1 TMEM150B
Osteoarthritis (self-reported)	3.16	2	0	0.0	0.00	1.000	MR1 TMEM150B
Medication for cholesterol	3.08	1	0	0.0	0.00	1.000	MR1
Lupus	2.99	1	0	0.0	0.00	1.000	MR1
Medication: Levothyroxine sodium	2.73	1	0	0.0	0.00	1.000	TCFL5
Pack years adult smoking proportion	2.71	1	0	0.0	0.00	1.000	TCFL5
Mother's age at death	2.70	1	0	0.0	0.00	1.000	EIF4EBP1
Back pain experienced in last month	2.69	1	0	0.0	0.00	1.000	TMEM150B
Pack years of smoking	2.59	1	0	0.0	0.00	1.000	TCFL5
Ever had hysterectomy (womb removed)	2.51	1	0	0.0	0.00	1.000	MR1
Supplements: Glucosamine	2.15	1	0	0.0	0.00	1.000	TMEM150B
Qualifications: nursing, teaching	1.99	1	0	0.0	0.00	1.000	TCFL5
Commuting to job workplace: Cycle	1.98	1	0	0.0	0.00	1.000	TMEM150B
Hypothyroidism/myxoedema (self-reported)	1.88	1	0	0.0	0.00	1.000	EIF4EBP1
Chronotype (morning person)	1.85	1	0	0.0	0.00	1.000	EIF4EBP1
Alzheimer’s Disease (including proxy)	1.79	1	0	0.0	0.00	1.000	MR1
Lung FEV1/FVC ratio	1.59	2	0	0.0	0.00	1.000	MR1 TMEM150B
Number of live births	1.47	1	0	0.0	0.00	1.000	MR1
Intelligence (Savage-Jansen 2018)	1.38	1	0	0.0	0.00	1.000	TCFL5
Knee pain experienced in last month	1.36	1	0	0.0	0.00	1.000	TMEM150B
Age when periods started (menarche)	1.32	1	0	0.0	0.00	1.000	EIF4EBP1
Hand grip strength (right)	1.30	1	0	0.0	0.00	1.000	TMEM150B
Forced vital capacity (FVC), Best measure	1.02	1	0	0.0	0.00	1.000	MR1
Forced expiratory volume in 1-second (FEV1)	1.00	1	0	0.0	0.00	1.000	TMEM150B
Sitting height	0.77	2	0	0.0	0.00	1.000	MR1 TCFL5
Standing height	0.37	1	0	0.0	0.00	1.000	TMEM150B
Blood Red Count	0.36	1	0	0.0	0.00	1.000	TMEM150B
Height	0.35	2	0	0.0	0.00	1.000	EIF4EBP1 MR1
Tanning	0.30	1	0	0.0	0.00	1.000	MR1

study	tissue	# hits	% hits/tests	avg chisq
GTEx	Colon Sigmoid	0	0.000	1.4
GTEx	Liver	1	0.139	1.4
GTEx	Prostate	0	0.000	1.4
GTEx	Small Intestine Terminal Ileum	0	0.000	1.4
GTEx	Testis	0	0.000	1.4
GTEx	Adipose Subcutaneous	0	0.000	1.3
GTEx	Adipose Visceral Omentum	0	0.000	1.3
GTEx	Adrenal Gland	0	0.000	1.3
GTEx	Artery Aorta	0	0.000	1.3
GTEx	Artery Coronary	0	0.000	1.3
GTEx	Artery Tibial	0	0.000	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 Hippocampus	0	0.000	1.3
GTEx	Brain Hypothalamus	0	0.000	1.3
GTEx	Breast Mammary Tissue	0	0.000	1.3
GTEx	Cells Transformed fibroblasts	0	0.000	1.3
GTEx	Colon Transverse	0	0.000	1.3
GTEx	Esophagus Gastroesophageal Junction	0	0.000	1.3
GTEx	Esophagus Mucosa	0	0.000	1.3
GTEx	Esophagus Muscularis	0	0.000	1.3
GTEx	Heart Left Ventricle	0	0.000	1.3
GTEx	Lung	0	0.000	1.3
GTEx	Muscle Skeletal	0	0.000	1.3
GTEx	Nerve Tibial	0	0.000	1.3
GTEx	Ovary	0	0.000	1.3
GTEx	Pancreas	0	0.000	1.3
GTEx	Pituitary	0	0.000	1.3
GTEx	Skin Not Sun Exposed Suprapubic	0	0.000	1.3
GTEx	Skin Sun Exposed Lower leg	0	0.000	1.3
GTEx	Spleen	0	0.000	1.3
GTEx	Stomach	0	0.000	1.3
GTEx	Thyroid	0	0.000	1.3
GTEx	Uterus	0	0.000	1.3
GTEx	Vagina	0	0.000	1.3
METSIM	Adipose	0	0.000	1.3
NTR	Blood	0	0.000	1.3
YFS	Blood	0	0.000	1.3
CommonMind	Brain Pre-frontal Cortex	1	0.019	1.3
The Cancer Genome Atlas	Bladder Urothelial Carcinoma	2	0.121	1.3
The Cancer Genome Atlas	Cervical Squamous Cell Carcinoma	0	0.000	1.3
The Cancer Genome Atlas	Colon Adenocarcinoma	0	0.000	1.3
The Cancer Genome Atlas	Esophageal Carcinoma	0	0.000	1.3
The Cancer Genome Atlas	Glioblastoma Multiforme	0	0.000	1.3
The Cancer Genome Atlas	Head and Neck Squamous Cell Carcinoma	0	0.000	1.3
The Cancer Genome Atlas	Kidney Renal Papillary Cell Carcinoma	0	0.000	1.3
The Cancer Genome Atlas	Brain Lower Grade Glioma	1	0.023	1.3
The Cancer Genome Atlas	Liver Hepatocellular Carcinoma	0	0.000	1.3
The Cancer Genome Atlas	Ovarian Serous Cystadenocarcinoma	1	0.063	1.3
The Cancer Genome Atlas	Prostate Adenocarcinoma	0	0.000	1.3
The Cancer Genome Atlas	Rectum Adenocarcinoma	0	0.000	1.3
The Cancer Genome Atlas	Skin Cutaneous Melanoma	0	0.000	1.3
The Cancer Genome Atlas	Stomach Adenocarcinoma	0	0.000	1.3
The Cancer Genome Atlas	Thyroid Carcinoma	0	0.000	1.3
GTEx	Brain Caudate basal ganglia	0	0.000	1.2
GTEx	Brain Frontal Cortex BA9	0	0.000	1.2
GTEx	Brain Nucleus accumbens basal ganglia	0	0.000	1.2
GTEx	Brain Putamen basal ganglia	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	Heart Atrial Appendage	0	0.000	1.2
GTEx	Whole Blood	0	0.000	1.2
ROSMAP	Brain Pre-frontal Cortex	0	0.000	1.2
The Cancer Genome Atlas	Breast Invasive Carcinoma	0	0.000	1.2
The Cancer Genome Atlas	Kidney Renal Clear Cell Carcinoma	0	0.000	1.2
The Cancer Genome Atlas	Lung Adenocarcinoma	0	0.000	1.2
The Cancer Genome Atlas	Lung Squamous Cell Carcinoma	1	0.040	1.2
The Cancer Genome Atlas	Pancreatic Adenocarcinoma	0	0.000	1.2
The Cancer Genome Atlas	Pheochromocytoma and Paraganglioma	0	0.000	1.2
The Cancer Genome Atlas	Soft Tissue Sarcoma	0	0.000	1.2
The Cancer Genome Atlas	Testicular Germ Cell Tumors	0	0.000	1.2
The Cancer Genome Atlas	Uterine Corpus Endometrial Carcinoma	0	0.000	1.1

Hub : Traits :

Ever used hormone-replacement therapy (HRT)

Significant Loci

Pleiotropic Associations

Associations by panel