Hub : Traits :

Breast cancer (self-reported)

12 significantly associated models · 8 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	3	26720690	28211713	2	1	7.5e-12	1.2e-13	4.6e-03	85	NEK10
2	5	44129083	45516364	1	1	1.5e-09	3.5e-08	3.3e-01	97	RP11-53O19.3
3	5	55524108	56923759	1	1	3.3e-08	3.6e-16	1.5e-09	45	CTD-2310F14.1
4	8	128107136	129812343	1	1	8.1e-09	1.7e-12	6.2e-06	59	PVT1
5	16	52222053	52828325	1	1	1.9e-26	1.3e-35	5.3e-11	72	TOX3

Pleiotropic Associations

Trait	chisq ratio	# genes⁺	# genes⁺⁺	% genes⁺⁺	corr	corr P	genes
Breast Cancer	139.22	5	5	11.1	-0.99	0.0014	CTD-2310F14.1 NEK10 PVT1 RP11-53O19.3 TOX3
Medication: Blood pressure	5.45	2	1	2.2	0.00	1.0000	NEK10 TOX3
Systolic Blood Pressure	4.79	2	2	4.4	0.00	1.0000	NEK10 TOX3
Supplements: Zinc	3.63	1	0	0.0	0.00	1.0000	CTD-2310F14.1
Medication: Metformin	3.50	1	0	0.0	0.00	1.0000	RP11-53O19.3
Mouth/teeth dental problems: Mouth ulcers	3.45	1	0	0.0	0.00	1.0000	RP11-53O19.3
Hypertension (Self-reported)	3.33	1	1	2.2	0.00	1.0000	NEK10
Vascular/heart problems diagnosed by doctor	3.30	2	1	2.2	0.00	1.0000	CTD-2310F14.1 NEK10
High blood pressure	3.11	1	1	2.2	0.00	1.0000	NEK10
Mother's age at death	3.04	1	0	0.0	0.00	1.0000	NEK10
Illnesses of father: High blood pressure	2.99	1	0	0.0	0.00	1.0000	NEK10
Irritability	2.74	1	0	0.0	0.00	1.0000	TOX3
Cardiovascular Disease	2.71	2	1	2.2	0.00	1.0000	CTD-2310F14.1 NEK10
Pulse rate, automated reading	2.58	2	0	0.0	0.00	1.0000	NEK10 RP11-53O19.3
Medication for cholesterol, blood pressure or diabetes	2.57	1	0	0.0	0.00	1.0000	NEK10
Prostate Cancer	2.56	1	0	0.0	0.00	1.0000	PVT1
Schizophrenia (2018)	2.51	1	0	0.0	0.00	1.0000	RP11-53O19.3
Ever depressed for a whole week	2.49	1	0	0.0	0.00	1.0000	RP11-53O19.3
Systolic blood pressure, automated reading	2.42	2	0	0.0	0.00	1.0000	NEK10 TOX3
High blood pressure (mother)	2.24	1	0	0.0	0.00	1.0000	NEK10
Schizophrenia (2014)	2.22	1	0	0.0	0.00	1.0000	RP11-53O19.3
Tense / 'highly strung'	2.22	1	0	0.0	0.00	1.0000	TOX3
Neuroticism (2016)	2.20	1	0	0.0	0.00	1.0000	TOX3
Ever unenthusiastic/disinterested for a whole week	2.20	1	0	0.0	0.00	1.0000	RP11-53O19.3
Neuroticism score	2.16	1	0	0.0	0.00	1.0000	TOX3
Bipolar Disorder or Schizophrenia	2.12	1	0	0.0	0.00	1.0000	RP11-53O19.3
Medication: Lisinopril	2.12	1	0	0.0	0.00	1.0000	NEK10
Forced vital capacity (FVC)	2.02	2	0	0.0	0.00	1.0000	NEK10 TOX3
Average weekly beer plus cider intake	1.98	1	0	0.0	0.00	1.0000	TOX3
Fed-up feelings	1.93	1	0	0.0	0.00	1.0000	RP11-53O19.3
Worry too long after embarrassment	1.92	1	0	0.0	0.00	1.0000	TOX3
Neuroticism (Nagel 2018)	1.77	1	0	0.0	0.00	1.0000	TOX3
Leg fat percentage (left)	1.72	2	0	0.0	0.00	1.0000	NEK10 TOX3
High blood pressure (siblings)	1.71	1	0	0.0	0.00	1.0000	NEK10
Leg fat percentage (right)	1.69	2	0	0.0	0.00	1.0000	NEK10 TOX3
Medication: Bendroflumethiazide	1.69	1	0	0.0	0.00	1.0000	NEK10
Forced vital capacity (FVC), Best measure	1.67	1	0	0.0	0.00	1.0000	PVT1
Body fat percentage	1.62	2	0	0.0	0.00	1.0000	NEK10 TOX3
Waist Hip Ratio (WHR)	1.61	2	0	0.0	0.00	1.0000	PVT1 RP11-53O19.3
Arm fat percentage (left)	1.55	2	0	0.0	0.00	1.0000	NEK10 TOX3
Medication: Blood pressure	1.55	1	0	0.0	0.00	1.0000	NEK10
Arm fat percentage (right)	1.51	1	0	0.0	0.00	1.0000	NEK10
Heel bone mineral density (BMD) T-score, automated (right)	1.49	1	0	0.0	0.00	1.0000	PVT1
Type 2 Diabetes (T2D) (2018)	1.47	1	0	0.0	0.00	1.0000	RP11-53O19.3
Forced expiratory volume in 1-second (FEV1), predicted	1.43	1	0	0.0	0.00	1.0000	PVT1
Trunk fat percentage	1.42	2	0	0.0	0.00	1.0000	NEK10 TOX3
Height	1.41	4	2	4.4	0.12	0.8825	CTD-2310F14.1 NEK10 PVT1 RP11-53O19.3
Standing height	1.36	3	1	2.2	0.00	1.0000	CTD-2310F14.1 NEK10 PVT1
Heel bone mineral density (BMD) T-score, automated (left)	1.35	1	0	0.0	0.00	1.0000	NEK10
Worry (Nagel 2018)	1.32	1	0	0.0	0.00	1.0000	TOX3
Neuroticism	1.31	1	0	0.0	0.00	1.0000	TOX3
Diastolic blood pressure, automated reading	1.27	1	0	0.0	0.00	1.0000	TOX3
Sitting height	1.24	3	0	0.0	0.00	1.0000	CTD-2310F14.1 NEK10 PVT1
Impedance of leg (left)	1.11	1	0	0.0	0.00	1.0000	CTD-2310F14.1
Smoking Status	1.09	1	0	0.0	0.00	1.0000	RP11-53O19.3
Comparative body size at age 10	1.09	1	0	0.0	0.00	1.0000	NEK10
Mood swings	1.06	1	0	0.0	0.00	1.0000	TOX3
BMI	1.04	2	0	0.0	0.00	1.0000	CTD-2310F14.1 NEK10
Impedance of whole body	1.02	1	0	0.0	0.00	1.0000	CTD-2310F14.1
Alcohol intake frequency.	1.00	1	0	0.0	0.00	1.0000	CTD-2310F14.1
Leg fat mass (left)	0.99	1	0	0.0	0.00	1.0000	TOX3
Impedance of leg (right)	0.96	1	0	0.0	0.00	1.0000	CTD-2310F14.1
Leg fat mass (right)	0.96	1	0	0.0	0.00	1.0000	TOX3
Trunk fat mass	0.90	1	0	0.0	0.00	1.0000	TOX3
Comparative height size at age 10	0.89	1	0	0.0	0.00	1.0000	CTD-2310F14.1
Whole body fat mass	0.88	1	0	0.0	0.00	1.0000	TOX3
Lung FVC	0.78	1	0	0.0	0.00	1.0000	TOX3
Hair Pigment	0.77	2	2	4.4	0.00	1.0000	CTD-2310F14.1 TOX3
Impedance of arm (left)	0.73	1	0	0.0	0.00	1.0000	CTD-2310F14.1
Heel T-Score	0.66	1	0	0.0	0.00	1.0000	NEK10
Blood Platelet Count	0.52	2	0	0.0	0.00	1.0000	NEK10 PVT1
Blood Red Count	0.49	1	0	0.0	0.00	1.0000	PVT1
Lung FEV1/FVC ratio	0.49	1	0	0.0	0.00	1.0000	RP11-53O19.3
Blood White Count	0.32	1	0	0.0	0.00	1.0000	NEK10

Associations by panel

study	tissue	# hits	% hits/tests	avg chisq
GTEx	Brain Hypothalamus	0	0.000	1.4
GTEx	Uterus	0	0.000	1.4
GTEx	Artery Coronary	0	0.000	1.3
GTEx	Brain Caudate basal ganglia	0	0.000	1.3
GTEx	Brain Cortex	0	0.000	1.3
GTEx	Brain Hippocampus	0	0.000	1.3
GTEx	Brain Nucleus accumbens basal ganglia	0	0.000	1.3
GTEx	Brain Putamen basal ganglia	0	0.000	1.3
GTEx	Breast Mammary Tissue	0	0.000	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	0	0.000	1.3
GTEx	Colon Sigmoid	0	0.000	1.3
GTEx	Heart Atrial Appendage	0	0.000	1.3
GTEx	Heart Left Ventricle	0	0.000	1.3
GTEx	Liver	0	0.000	1.3
GTEx	Lung	1	0.035	1.3
GTEx	Ovary	0	0.000	1.3
GTEx	Pancreas	0	0.000	1.3
GTEx	Pituitary	0	0.000	1.3
GTEx	Prostate	0	0.000	1.3
GTEx	Small Intestine Terminal Ileum	0	0.000	1.3
GTEx	Spleen	2	0.142	1.3
GTEx	Vagina	0	0.000	1.3
GTEx	Adipose Subcutaneous	0	0.000	1.2
GTEx	Adipose Visceral Omentum	1	0.049	1.2
GTEx	Adrenal Gland	0	0.000	1.2
GTEx	Artery Aorta	0	0.000	1.2
GTEx	Artery Tibial	1	0.027	1.2
GTEx	Brain Cerebellar Hemisphere	0	0.000	1.2
GTEx	Brain Cerebellum	0	0.000	1.2
GTEx	Brain Frontal Cortex BA9	0	0.000	1.2
GTEx	Cells Transformed fibroblasts	1	0.024	1.2
GTEx	Colon Transverse	0	0.000	1.2
GTEx	Esophagus Gastroesophageal Junction	0	0.000	1.2
GTEx	Esophagus Mucosa	0	0.000	1.2
GTEx	Esophagus Muscularis	0	0.000	1.2
GTEx	Muscle Skeletal	0	0.000	1.2
GTEx	Nerve Tibial	0	0.000	1.2
GTEx	Skin Not Sun Exposed Suprapubic	1	0.041	1.2
GTEx	Skin Sun Exposed Lower leg	0	0.000	1.2
GTEx	Stomach	0	0.000	1.2
GTEx	Testis	0	0.000	1.2
GTEx	Thyroid	0	0.000	1.2
GTEx	Whole Blood	0	0.000	1.2
NTR	Blood	0	0.000	1.2
CommonMind	Brain Pre-frontal Cortex	0	0.000	1.2
The Cancer Genome Atlas	Bladder Urothelial Carcinoma	0	0.000	1.2
The Cancer Genome Atlas	Breast Invasive Carcinoma	3	0.068	1.2
The Cancer Genome Atlas	Colon Adenocarcinoma	0	0.000	1.2
The Cancer Genome Atlas	Glioblastoma Multiforme	0	0.000	1.2
The Cancer Genome Atlas	Head and Neck Squamous Cell Carcinoma	1	0.037	1.2
The Cancer Genome Atlas	Kidney Renal Clear 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	0	0.000	1.2
The Cancer Genome Atlas	Lung Adenocarcinoma	0	0.000	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	Uterine Corpus Endometrial Carcinoma	0	0.000	1.2
METSIM	Adipose	0	0.000	1.1
ROSMAP	Brain Pre-frontal Cortex	0	0.000	1.1
YFS	Blood	0	0.000	1.1
The Cancer Genome Atlas	Cervical Squamous Cell Carcinoma	0	0.000	1.1
The Cancer Genome Atlas	Esophageal Carcinoma	0	0.000	1.1
The Cancer Genome Atlas	Kidney Renal Papillary Cell Carcinoma	0	0.000	1.1
The Cancer Genome Atlas	Lung Squamous Cell Carcinoma	0	0.000	1.1
The Cancer Genome Atlas	Ovarian Serous Cystadenocarcinoma	0	0.000	1.1
The Cancer Genome Atlas	Prostate Adenocarcinoma	1	0.022	1.1
The Cancer Genome Atlas	Rectum Adenocarcinoma	0	0.000	1.1
The Cancer Genome Atlas	Skin Cutaneous Melanoma	0	0.000	1.1
The Cancer Genome Atlas	Stomach Adenocarcinoma	0	0.000	1.1
The Cancer Genome Atlas	Testicular Germ Cell Tumors	0	0.000	1.1
The Cancer Genome Atlas	Thyroid Carcinoma	0	0.000	1.1