GWAS and drug targets

Cao, Chen; Moult, John

doi:10.1186/1471-2164-15-S4-S5

BMC Genomics

Table 4 Machine learning results for different diseases, using a Random Forest.

From: GWAS and drug targets

Disease	GWAS genes	Drug targets (Mapped in Network)	True Positive	False Positive	Precision	Recall	ROC area	F-Measure
Ankylosing spondylitis	17	29(24)	0.36	0.123	0.074	0.36	0.73	0.123
Menopause	24	15(14)	0.571	0.098	0.082	0.571	0.819	0.143
Multiple sclerosis	126	30(28)	0.393	0.052	0.19	0.393	0.75	0.256
Myocardial infarction	14	44(40)	0.175	0.135	0.055	0.175	0.571	0.084
Nephropathy/Nephrotic syndrome	26	38(35)	0.371	0.245	0.056	0.371	0.576	0.097
Obesity	40	11(11)	0.273	0.098	0.032	0.273	0.724	0.058
Osteoporosis	10	10(10)	0.2	0.189	0.011	0.2	0.546	0.022
Pancreatic cancer	29	11(6)	0.167	0.1	0.011	0.167	0.611	0.02
Panic disorder	10	18(16)	0.438	0.118	0.061	0.438	0.754	0.107
Parkinson's disease	62	184(132)	0.606	0.226	0.307	0.606	0.712	0.407
Asthma	43	52(47)	0.213	0.102	0.1	0.213	0.713	0.136
Prostate cancer	95	21(18)	0.5	0.073	0.118	0.5	0.686	0.191
Psoriasis/Psoriatic arthritis	31	39(36)	0.5	0.076	0.209	0.5	0.852	0.295
Rheumatoid arthritis	67	80(68)	0.324	0.131	0.163	0.324	0.677	0.217
Type 1 diabetes	76	18(16)	0.25	0.104	0.04	0.25	0.631	0.07
Type 2 diabetes	92	34(28)	0.214	0.116	0.054	0.214	0.595	0.086
Bipolar disorder/Schizophrenia	217	110(81)	0.593	0.15	0.273	0.593	0.744	0.374
Blood pressure/Hypertension	101	114(102)	0.412	0.143	0.261	0.412	0.717	0.319
Breast cancer	43	43(38)	0.289	0.072	0.147	0.289	0.745	0.195
Chronic lymphocytic leukemia	17	29(26)	0.423	0.098	0.11	0.423	0.653	0.175
Colorectal cancer	14	16(16)	0.25	0.154	0.028	0.25	0.53	0.05
Acute lymphoblastic leukemia	19	10(10)	0.7	0.07	0.097	0.7	0.889	0.171
Crohn's disease	139	23(22)	0.455	0.093	0.105	0.455	0.764	0.171
Depression/Depressive disorder	68	73(62)	0.597	0.172	0.198	0.597	0.722	0.297
Diabetes	209	59(51)	0.216	0.081	0.134	0.216	0.712	0.165
Allergic rhinitis	11	20(19)	0.263	0.128	0.041	0.263	0.589	0.071
Glaucoma	14	31(25)	0.16	0.189	0.023	0.16	0.443	0.04
Alzheimer's disease	54	179(125)	0.544	0.178	0.321	0.544	0.69	0.404
Heart failure	16	65(54)	0.481	0.222	0.118	0.481	0.655	0.189
HIV/AIDS	63	53(34)	0.353	0.121	0.099	0.353	0.715	0.155
Kawasaki disease	20	11(10)	0.7	0.027	0.219	0.7	0.919	0.333

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ISSN: 1471-2164

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