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Table 2 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
10 6316580–6390596 17 92 14 2.70E-06 PFKFB3 LDL cholesterol (4), Total cholesterol (4), Celiac disease (2), RA (2), Waist circumference (2), Bipolar disorder (2), Weight (1)
13 109616103–109677555 19 67 15 7.61E-06 COL4A1 Weight (11), Type II (2), ALS (2), BMI (1), Height (1), Diastolic blood pressure (1), combined WTCCC cases (1)
8 4621850–4669277 27 25 16 1.12E-04 CSMD1 HIV-1 viral load set point (25), Crohn's disease (1), combined WTCCC cases (1)
3 21847197–21874359 20 56 17 2.00E-05 intergenic, 3p24.1 Type II (10), Diastolic blood pressure (4), Bipolar disorder (2), Alzheimer's (2), Parkinson's (1), Crohn's disease (1), combined WTCCC cases (1)
13 23522469–23566520 15 142 18 2.62E-04 SPATA13 Fat mass (8), Type II (3), Alzheimer's (2), Crohn's (1), RA (1)
13 109706778–109769126 9 447 24 2.0E-05 COL4A1 HbA1c (3), CAD (2), RA (1), ApoB (1), Crohn's (1), Parkinson's (1), Alzheimer's (1)
20 59002911–59076486 17 94 25 2.11E-05 intergenic, 20q13.33 CAD (6), Type II (2), combined WTCCC cases (2), HTN (2), RA (1), Crohn's disease (1), Breast cancer (1), Alzheimer's (1), ALS (1)
2 121639597–121685155 15 143 26 4.00E-06 intergenic, 2q14.2 Alzheimer's (4), Triglyceride/HDL ratio (4), Triglycerides (3), HDL (1), Type I (1), RA (1), Insulinogenic index (1)
4 178511559–178569631 10 448 30 6.90E-06 NEIL3 ALS (3), Parkinson's (1), Bipolar disorder (1), Type II (1), Type I (1), combined WTCCC cases (1), mFPG (1), heart rate variability (1)
16 76400711–76498035 11 333 32 1.10E-04 KIAA1576 2 hr insulin test (5), combined WTCCC cases (2), LV diastolic dimension (1), Fasting insulin (1), HOMA-IR (1), Alzheimer's (1)
3 2801545–2885980 11 334 35 2.48E-05 CNTN4 Total cholesterol (3), HIV-1 viral load set point (2), combined WTCCC cases (1), RA (1), Waist:height squared (1), 2 hr glucose tolerance test (1), Alzheimer's (1), ALS (1)
22 48109439–48199236 9 583 42 3.76E-05 intergenic, 22q13.32 Type II (3), CAD (2), HTN (2), LDL (1), Small vessel stroke (1)
7 77505244–77596871 17 95 44 1.38E-04 MAGI2 BMI (5), Waist circumference (5), Waist:height squared (5), HTN (1), ALS (1)
16 6603645–6620427 15 145 45 2.31E-05 A2BP1 HOMA-IR (6), Fasting insulin (4), 2 hr insulin test (3), RA (1), Nicotine dependence (1)
8 134608378–134674046 14 177 46 5.66E-05 ST3GAL1 Type II (6), Alzheimer's (6), Crohn's disease (2)
11 113445679–113499715 13 221 47 1.25E-05 ZBTB16 Waist circumference (4), HDL (3), BMI (2), Weight (2), Type II (1), LDL (1)
8 4200701–4270026 10 450 51 2.79E-04 CSMD1 HIV-1 (4), HTN (1), Systolic blood pressure (1), Type I (1), FPG (1), Colorectal cancer (1), Alzheimer's (1)
20 54803001–54891697 8 761 52 2.65E-04 intergenic, 20q13.31 ApoB (2), CAD (1), HTN (1), Fasting glucose (1), 2 hr glucose (1), Alzheimer's (1), Triglyceride/HDL ratio (1)
13 109813629–109898019 15 146 53 1.89E-05 COL4A2 Type II (10), CAD (2), HTN (1), ALS (1), Alzheimer's (1)
16 82802796–82891261 8 762 54 1.60E-05 KCNG4, WFDC1 HIV-1 (2), Type II (1), Crohn's disease (1), Fat mass (1), Insulinogenic index (1), ALS (1), combined WTCCC cases (1)
6 164313234–164367157 22 44 135 3.84E-05 intergenic, 6q26 Insulinogenic index (14), LDL (3), HOMA-IR (2), Alzheimer's (1), Parkinson's (1), RA (1)
13 63720215–63799016 24 33 148 7.46E-05 intergenic, 13q21.31 HDL cholesterol (8), Waist circumference (7), Weight (5), CAD (2), BMI (1), Gallstone disease (1)
3 162876798–162898990 24 34 229 2.41E-05 intergenic, 3q26.1 BMI (7), Waist circumference (6), Waist:height (6), Weight (2), Early onset Type II (1), Hypertension (1), Crohn's disease (1)
12 58400177–58492903 35 18 267 1.12E-05 SLC16A7 Crohn's disease (21), HDL (14)
21 40500455–40546492 22 46 326 9.05E-05 DSCAM Height (11), Weight (7), Waist circumference (4)
12 111841825–111894699 22 47 440 5.92E-05 OAS1/2/3, RPH3A Crohn's disease (18), Type I (4)
7 86415282–86498669 23 40 1434 1.60E-04 KIAA1324L Type II (20), Triglyceride/HDL ratio (2), CAD (1)
4 35101778–35198927 23 41 1569 7.72E-05 intergenic, 4p15.1 Nicotine dependence (21), Type I (1), Hypertension (1)
  1. Densest regions of GWAS associations in the human genome not 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 associations not previously highlighted and ranked in the top 55 by density and/or after LD adjustment are listed.