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Table 1 Densest regions of GWAS associations in the human genome based on analysis of 100 kb bins.

From: An Open Access Database of Genome-wide Association Results

Chr Position GWAS assoc. in bin Density rank LD adj. rank Min. p value Gene(s) Phenotype(s) in decreasing order of occurrence
6 32405288–32497626 177 1 1 5.47E-111 C6orf10, BTNL2 RA (65), Type I (50), MS (26), Type II (17), combined WTCCC cases (10), CAD (8), Alzheimer's (1)
6 32703038–32798923 107 3 2 1.12E-307 HLA-DQA1, HLA-DQB1 Type I (47), RA (30), MS (14), combined WTCCC cases (7), Celiac disease (3), SLE (2), Crohn's disease (1), AAT levels (1), Type II (1), Alzheimer's (1)
6 32806435–32896489 116 2 3 4.86E-79 HLA-DQA1, HLA-DQB1, HLA-DOB Type I (59), RA (25), MS (21), combined WTCCC cases (9), Early onset obesity (1), 2 hr glucose tolerance test (1)
2 60502647–60591731 77 5 4 6.70E-35 BCL11A HbF (75), Type II (1), Hypertension (1)
2 60415435–60494833 87 4 5 2.50E-12 downstream from BCL11A HbF (75), Type II (7), CAD (1), Abdominal aortic calcification (1), combined WTCCC cases (1), Bipolar (1), Parkinson's (1)
1 67406551–67498692 65 6 6 3.03E-23 IL23R Crohn's disease (60), Psoriasis (2), RA (1), CAD (1), combined WTCCC cases (1)
9 89310993–89384465 46 9 7 2.80E-05 DAPK1 Alzheimer's (19), HOMA-IR (17), Waist:height (5), Type II (2), Fasting insulin (2), RA (1)
6 151254904–151296407 17 91 8 2.90E-08 MTHFDL1 CAD (10), Type 1 (2), combined WTCCC cases (1), Hypertension (1), FPG (1), Insulinogenic index (1), ALS (1)
11 5401462–5499595 29 23 9 9.46E-24 HBB, UBQLN3, olfactory receptors MCV (8), HbA2 (7), RBC (3), HbA1C (1), CAD (3), Type II (3), Fat mass (2), Bipolar disorder (1), Crohn's disease (1)
16 55526649–55589312 22 43 10 1.00E-73 CETP HDL cholesterol (16), Type II (3), ApoAI (2), HTN (1)
9 116701486–116796674 31 22 11 1.61E-09 TNFSF8, TNC Crohn's disease (29), 2 hr glucose tolerance test (2)
8 128116770–128194686 24 31 12 1.10E-12 intergenic, 8q24 Colorectal cancer (10), Prostate cancer (8), Bipolar disorder (3), CAD (2), Hypertension (1)
8 19857092–19899552 42 11 13 2.00E-28 LPL Triglycerides (22), HDL (11), Triglyceride:HDL (4), CAD (4), RA (1), Hip circumference (1)
9 22102599–22126489 26 29 20 1.00E-20 ANRIL, 3' of CDKN2A/2B Type II (12), CAD (11), combined WTCCC cases (2), Coronary artery calcification (1)
10 123321680–123395011 28 24 21 2.00E-76 FGFR2 Breast cancer (24), RA (2), Type II (1), combined WTCCC cases (1)
6 20706282–20796100 33 21 28 4.11E-11 CDKAL1 Type II (32), Insulin response (1)
16 49300832–49399578 47 8 31 2.51E-49 NOD2 Crohn's disease (44), RA (1), combined WTCCC cases (1), ApoB (1)
16 52327178–52389272 38 14 33 7.30E-14 FTO TypeII (15), Hip circumference (15), Early onset obesity (6), Fasting glucose (1), ALS (1)
10 114722872–114798892 39 13 34 1.00E-48 TCF7L2 Type II (36), Waist:height (2), BMI (1)
9 22007836–22093813 52 7 41 2.10E-19 MTAP, ANRIL, CDKN2A/2B CAD (48), Coronary artery calcification (2), Type II (2), Type I (1), RA (1)
17 35304874–35382291 44 10 43 2.00E-23 ORMDL3 Childhood asthma (34), ORMDL3 expression (7), Crohn's disease (3)
1 228303905–228375529 24 32 55 7.00E-15 GALNT2 Type II (9), Triglycerides (7), HDL (6), Crohn's disease (1), ALS (1)
16 49218265–49298963 34 19 73 4.71E-29 NOD2, SLIC1, CYLD Crohn's disease (33), Bipolar disorder (1)
11 41805501–41887387 34 20 74 5.70E-08 11p12, 800 kb from NGL1 Type II (33), Coronary spasm (1)
1 109608806–109623689 23 37 92 1.20E-33 SORT1, CELSR2, PSRC1, MYBPHL, SARS LDL cholesterol (16), CAD (4), Total cholesterol (1), Bipolar disorder (1)
8 128404855–128498005 23 38 99 1.27E-14 POU5F1 Prostate cancer (8), Colorectal cancer (13), Breast cancer (1), Hypertension (1)
5 40513272–40597115 40 12 264 8.73E-12 intergenic, 5p31.1 Crohn's disease (40)
20 33403387–33489397 36 17 322 5.01E-12 GDF5, UQCC, CEP250 Height (35), Hypertension (1)
10 64100271–64194296 24 35 494 1.00E-10 ZNF365, ADO, EGR2 Crohn's disease (16), Type II (8)
17 41401810–41495480 38 15 526 3.53E-05 KIAA1267, MAPT, STH Crohn's disease (26), Alzheimer's (11), Insulinogenic index (1)
10 44011247–44096316 23 39 647 9.46E-08 intergenic, 10q11.21 CAD (20), Diastolic blood pressure (2), Fasting glucose (1)
17 41305238–41395352 37 16 746 2.78E-05 KIAA1267, MAPT, STH Crohn's disease (19), Alzheimer's (18)
2 21223320–21252721 27 27 796 8.10E-09 upstream of APOB LDL cholesterol (17), Total cholesterol (10)
  1. Densest regions of GWAS associations in the human genome previously highlighted in a GWAS study (based on analysis of 100 kb bins). Bin rankings are given based on simple counts of associations, and after adjusting for HapMap CEU LD (average pairwise r2 in the same region), out of 18,310 bins in the genome that contained 1 or more GWAS association. Bins with known, replicated associations ranked in the top 40 by density and/or after LD adjustment are listed.