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European-American COPD 11:59 Tuesday, June 18, 2002 4
SNP = 21291
Allele Frequency
Frequency|
Percent |A |G | Total
---------+--------+--------+
Case | 188 | 88 | 276
| 46.31 | 21.67 | 67.98
---------+--------+--------+
Control | 91 | 39 | 130
| 22.41 | 9.61 | 32.02
---------+--------+--------+
Total 279 127 406
68.72 31.28 100.00
Frequency Missing = 44
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.1459 0.7025
Likelihood Ratio Chi-Square 1 0.1465 0.7019
Continuity Adj. Chi-Square 1 0.0714 0.7892
Mantel-Haenszel Chi-Square 1 0.1456 0.7028
Phi Coefficient -0.0190
Contingency Coefficient 0.0190
Cramer's V -0.0190
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 188
Left-sided Pr <= F 0.3965
Right-sided Pr >= F 0.6889
Table Probability (P) 0.0854
Two-sided Pr <= P 0.7319
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.9156 0.5823 1.4396
Cohort (Col1 Risk) 0.9731 0.8472 1.1176
Cohort (Col2 Risk) 1.0628 0.7763 1.4551
Effective Sample Size = 406
Frequency Missing = 44
European-American COPD 11:59 Tuesday, June 18, 2002 5
SNP = 21291
Allele Frequency
Frequency|
Percent |AA |GA |GG | Total
---------+--------+--------+--------+
Case | 62 | 64 | 12 | 138
| 30.54 | 31.53 | 5.91 | 67.98
---------+--------+--------+--------+
Control | 32 | 27 | 6 | 65
| 15.76 | 13.30 | 2.96 | 32.02
---------+--------+--------+--------+
Total 94 91 18 203
46.31 44.83 8.87 100.00
Frequency Missing = 22
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 0.4217 0.8099
Likelihood Ratio Chi-Square 2 0.4229 0.8094
Mantel-Haenszel Chi-Square 1 0.1517 0.6969
Phi Coefficient 0.0456
Contingency Coefficient 0.0455
Cramer's V 0.0456
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.4217
DF 2
Asymptotic Pr > ChiSq 0.8099
Exact Pr >= ChiSq 0.8116
Effective Sample Size = 203
Frequency Missing = 22
European-American COPD 11:59 Tuesday, June 18, 2002 6
SNP = 21415
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Case | 59 | 233 | 292
| 14.05 | 55.48 | 69.52
---------+--------+--------+
Control | 39 | 89 | 128
| 9.29 | 21.19 | 30.48
---------+--------+--------+
Total 98 322 420
23.33 76.67 100.00
Frequency Missing = 30
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 5.2400 0.0221
Likelihood Ratio Chi-Square 1 5.0736 0.0243
Continuity Adj. Chi-Square 1 4.6820 0.0305
Mantel-Haenszel Chi-Square 1 5.2275 0.0222
Phi Coefficient -0.1117
Contingency Coefficient 0.1110
Cramer's V -0.1117
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 59
Left-sided Pr <= F 0.0163
Right-sided Pr >= F 0.9914
Table Probability (P) 0.0076
Two-sided Pr <= P 0.0245
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.5779 0.3603 0.9269
Cohort (Col1 Risk) 0.6632 0.4687 0.9383
Cohort (Col2 Risk) 1.1476 1.0093 1.3048
Effective Sample Size = 420
Frequency Missing = 30
European-American COPD 11:59 Tuesday, June 18, 2002 7
SNP = 21415
Allele Frequency
Frequency|
Percent |CC |CT |TT | Total
---------+--------+--------+--------+
Case | 5 | 49 | 92 | 146
| 2.38 | 23.33 | 43.81 | 69.52
---------+--------+--------+--------+
Control | 5 | 29 | 30 | 64
| 2.38 | 13.81 | 14.29 | 30.48
---------+--------+--------+--------+
Total 10 78 122 210
4.76 37.14 58.10 100.00
Frequency Missing = 15
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 5.4480 0.0656
Likelihood Ratio Chi-Square 2 5.3268 0.0697
Mantel-Haenszel Chi-Square 1 5.4219 0.0199
Phi Coefficient 0.1611
Contingency Coefficient 0.1590
Cramer's V 0.1611
Pearson Chi-Square Test
----------------------------------
Chi-Square 5.4480
DF 2
Asymptotic Pr > ChiSq 0.0656
Exact Pr >= ChiSq 0.0650
Effective Sample Size = 210
Frequency Missing = 15
European-American COPD 11:59 Tuesday, June 18, 2002 8
SNP = 2733
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Case | 80 | 196 | 276
| 19.51 | 47.80 | 67.32
---------+--------+--------+
Control | 39 | 95 | 134
| 9.51 | 23.17 | 32.68
---------+--------+--------+
Total 119 291 410
29.02 70.98 100.00
Frequency Missing = 40
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.0006 0.9801
Likelihood Ratio Chi-Square 1 0.0006 0.9801
Continuity Adj. Chi-Square 1 0.0000 1.0000
Mantel-Haenszel Chi-Square 1 0.0006 0.9802
Phi Coefficient -0.0012
Contingency Coefficient 0.0012
Cramer's V -0.0012
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 80
Left-sided Pr <= F 0.5340
Right-sided Pr >= F 0.5582
Table Probability (P) 0.0922
Two-sided Pr <= P 1.0000
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.9942 0.6311 1.5663
Cohort (Col1 Risk) 0.9959 0.7215 1.3748
Cohort (Col2 Risk) 1.0017 0.8777 1.1431
Effective Sample Size = 410
Frequency Missing = 40
European-American COPD 11:59 Tuesday, June 18, 2002 9
SNP = 2733
Allele Frequency
Frequency|
Percent |CC |CT |TT | Total
---------+--------+--------+--------+
Case | 12 | 56 | 70 | 138
| 5.85 | 27.32 | 34.15 | 67.32
---------+--------+--------+--------+
Control | 7 | 25 | 35 | 67
| 3.41 | 12.20 | 17.07 | 32.68
---------+--------+--------+--------+
Total 19 81 105 205
9.27 39.51 51.22 100.00
Frequency Missing = 20
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 0.2914 0.8644
Likelihood Ratio Chi-Square 2 0.2895 0.8652
Mantel-Haenszel Chi-Square 1 0.0006 0.9806
Phi Coefficient 0.0377
Contingency Coefficient 0.0377
Cramer's V 0.0377
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.2914
DF 2
Asymptotic Pr > ChiSq 0.8644
Exact Pr >= ChiSq 0.8601
Effective Sample Size = 205
Frequency Missing = 20
European-American COPD 11:59 Tuesday, June 18, 2002 10
SNP = 421371
Allele Frequency
Frequency|
Percent |A |G | Total
---------+--------+--------+
Case | 172 | 58 | 230
| 50.89 | 17.16 | 68.05
---------+--------+--------+
Control | 79 | 29 | 108
| 23.37 | 8.58 | 31.95
---------+--------+--------+
Total 251 87 338
74.26 25.74 100.00
Frequency Missing = 112
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.1027 0.7486
Likelihood Ratio Chi-Square 1 0.1022 0.7492
Continuity Adj. Chi-Square 1 0.0350 0.8516
Mantel-Haenszel Chi-Square 1 0.1024 0.7490
Phi Coefficient 0.0174
Contingency Coefficient 0.0174
Cramer's V 0.0174
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 172
Left-sided Pr <= F 0.6772
Right-sided Pr >= F 0.4229
Table Probability (P) 0.1001
Two-sided Pr <= P 0.7900
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.0886 0.6477 1.8298
Cohort (Col1 Risk) 1.0223 0.8917 1.1721
Cohort (Col2 Risk) 0.9391 0.6405 1.3769
Effective Sample Size = 338
Frequency Missing = 112
WARNING: 25% of the data are missing.
European-American COPD 11:59 Tuesday, June 18, 2002 11
SNP = 421371
Allele Frequency
Frequency|
Percent |AA |GA |GG | Total
---------+--------+--------+--------+
Case | 71 | 30 | 14 | 115
| 42.01 | 17.75 | 8.28 | 68.05
---------+--------+--------+--------+
Control | 33 | 13 | 8 | 54
| 19.53 | 7.69 | 4.73 | 31.95
---------+--------+--------+--------+
Total 104 43 22 169
61.54 25.44 13.02 100.00
Frequency Missing = 56
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 0.2577 0.8791
Likelihood Ratio Chi-Square 2 0.2540 0.8808
Mantel-Haenszel Chi-Square 1 0.0765 0.7821
Phi Coefficient 0.0391
Contingency Coefficient 0.0390
Cramer's V 0.0391
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.2577
DF 2
Asymptotic Pr > ChiSq 0.8791
Exact Pr >= ChiSq 0.8887
Effective Sample Size = 169
Frequency Missing = 56
WARNING: 25% of the data are missing.
European-American COPD 11:59 Tuesday, June 18, 2002 12
SNP = 426160
Allele Frequency
Frequency|
Percent |A |G | Total
---------+--------+--------+
Case | 0 | 292 | 292
| 0.00 | 69.52 | 69.52
---------+--------+--------+
Control | 1 | 127 | 128
| 0.24 | 30.24 | 30.48
---------+--------+--------+
Total 1 419 420
0.24 99.76 100.00
Frequency Missing = 30
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 2.2867 0.1305
Likelihood Ratio Chi-Square 1 2.3819 0.1227
Continuity Adj. Chi-Square 1 0.1803 0.6711
Mantel-Haenszel Chi-Square 1 2.2813 0.1309
Phi Coefficient -0.0738
Contingency Coefficient 0.0736
Cramer's V -0.0738
WARNING: 50% of the cells have expected counts less
than 5. Chi-Square may not be a valid test.
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 0
Left-sided Pr <= F 0.3048
Right-sided Pr >= F 1.0000
Table Probability (P) 0.3048
Two-sided Pr <= P 0.3048
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Cohort (Col2 Risk) 1.0079 0.9925 1.0235
One or more risk estimates not computed --- zero cell.
Effective Sample Size = 420
Frequency Missing = 30
European-American COPD 11:59 Tuesday, June 18, 2002 13
SNP = 426160
Allele Frequency
Frequency|
Percent |GA |GG | Total
---------+--------+--------+
Case | 0 | 146 | 146
| 0.00 | 69.52 | 69.52
---------+--------+--------+
Control | 1 | 63 | 64
| 0.48 | 30.00 | 30.48
---------+--------+--------+
Total 1 209 210
0.48 99.52 100.00
Frequency Missing = 15
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 2.2922 0.1300
Likelihood Ratio Chi-Square 1 2.3874 0.1223
Continuity Adj. Chi-Square 1 0.1808 0.6707
Mantel-Haenszel Chi-Square 1 2.2813 0.1309
Phi Coefficient -0.1045
Contingency Coefficient 0.1039
Cramer's V -0.1045
WARNING: 50% of the cells have expected counts less than 5.
(Asymptotic) Chi-Square may not be a valid test.
Pearson Chi-Square Test
----------------------------------
Chi-Square 2.2922
DF 1
Asymptotic Pr > ChiSq 0.1300
Exact Pr >= ChiSq 0.3048
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 0
Left-sided Pr <= F 0.3048
Right-sided Pr >= F 1.0000
Table Probability (P) 0.3048
Two-sided Pr <= P 0.3048
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Cohort (Col2 Risk) 1.0159 0.9850 1.0477
One or more risk estimates not computed --- zero cell.
Effective Sample Size = 210
Frequency Missing = 15
European-American COPD 11:59 Tuesday, June 18, 2002 14
SNP = 426766
Allele Frequency
Frequency|
Percent |A |G | Total
---------+--------+--------+
Case | 68 | 206 | 274
| 17.17 | 52.02 | 69.19
---------+--------+--------+
Control | 26 | 96 | 122
| 6.57 | 24.24 | 30.81
---------+--------+--------+
Total 94 302 396
23.74 76.26 100.00
Frequency Missing = 54
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.5732 0.4490
Likelihood Ratio Chi-Square 1 0.5813 0.4458
Continuity Adj. Chi-Square 1 0.3959 0.5292
Mantel-Haenszel Chi-Square 1 0.5718 0.4496
Phi Coefficient 0.0380
Contingency Coefficient 0.0380
Cramer's V 0.0380
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 68
Left-sided Pr <= F 0.8114
Right-sided Pr >= F 0.2664
Table Probability (P) 0.0778
Two-sided Pr <= P 0.5228
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.2188 0.7299 2.0353
Cohort (Col1 Risk) 1.1645 0.7818 1.7345
Cohort (Col2 Risk) 0.9554 0.8519 1.0716
Effective Sample Size = 396
Frequency Missing = 54
WARNING: 12% of the data are missing.
European-American COPD 11:59 Tuesday, June 18, 2002 15
SNP = 426766
Allele Frequency
Frequency|
Percent |AA |GA |GG | Total
---------+--------+--------+--------+
Case | 6 | 56 | 75 | 137
| 3.03 | 28.28 | 37.88 | 69.19
---------+--------+--------+--------+
Control | 2 | 22 | 37 | 61
| 1.01 | 11.11 | 18.69 | 30.81
---------+--------+--------+--------+
Total 8 78 112 198
4.04 39.39 56.57 100.00
Frequency Missing = 27
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 0.6352 0.7279
Likelihood Ratio Chi-Square 2 0.6411 0.7258
Mantel-Haenszel Chi-Square 1 0.6254 0.4291
Phi Coefficient 0.0566
Contingency Coefficient 0.0566
Cramer's V 0.0566
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.6352
DF 2
Asymptotic Pr > ChiSq 0.7279
Exact Pr >= ChiSq 0.7335
Effective Sample Size = 198
Frequency Missing = 27
WARNING: 12% of the data are missing.
European-American COPD 11:59 Tuesday, June 18, 2002 16
SNP = 432336
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Case | 69 | 199 | 268
| 17.51 | 50.51 | 68.02
---------+--------+--------+
Control | 40 | 86 | 126
| 10.15 | 21.83 | 31.98
---------+--------+--------+
Total 109 285 394
27.66 72.34 100.00
Frequency Missing = 56
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 1.5417 0.2144
Likelihood Ratio Chi-Square 1 1.5199 0.2176
Continuity Adj. Chi-Square 1 1.2565 0.2623
Mantel-Haenszel Chi-Square 1 1.5378 0.2149
Phi Coefficient -0.0626
Contingency Coefficient 0.0624
Cramer's V -0.0626
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 69
Left-sided Pr <= F 0.1315
Right-sided Pr >= F 0.9127
Table Probability (P) 0.0442
Two-sided Pr <= P 0.2285
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.7455 0.4685 1.1861
Cohort (Col1 Risk) 0.8110 0.5848 1.1246
Cohort (Col2 Risk) 1.0879 0.9473 1.2494
Effective Sample Size = 394
Frequency Missing = 56
WARNING: 12% of the data are missing.
European-American COPD 11:59 Tuesday, June 18, 2002 17
SNP = 432336
Table of case_cn by gfreq7
case_cn gfreq7
Frequency|
Percent |CC |CT |TT | Total
---------+--------+--------+--------+
Case | 14 | 41 | 79 | 134
| 7.11 | 20.81 | 40.10 | 68.02
---------+--------+--------+--------+
Control | 10 | 20 | 33 | 63
| 5.08 | 10.15 | 16.75 | 31.98
---------+--------+--------+--------+
Total 24 61 112 197
12.18 30.96 56.85 100.00
Frequency Missing = 28
Statistics for Table of case_cn by gfreq7
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 1.3794 0.5017
Likelihood Ratio Chi-Square 2 1.3391 0.5120
Mantel-Haenszel Chi-Square 1 1.2508 0.2634
Phi Coefficient 0.0837
Contingency Coefficient 0.0834
Cramer's V 0.0837
Pearson Chi-Square Test
----------------------------------
Chi-Square 1.3794
DF 2
Asymptotic Pr > ChiSq 0.5017
Exact Pr >= ChiSq 0.5223
Effective Sample Size = 197
Frequency Missing = 28
WARNING: 12% of the data are missing.
European-American COPD 11:59 Tuesday, June 18, 2002 18
SNP = NOD1.449861
Allele Frequency
Frequency|
Percent |A |G | Total
---------+--------+--------+
Case | 41 | 251 | 292
| 9.81 | 60.05 | 69.86
---------+--------+--------+
Control | 21 | 105 | 126
| 5.02 | 25.12 | 30.14
---------+--------+--------+
Total 62 356 418
14.83 85.17 100.00
Frequency Missing = 32
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.4803 0.4883
Likelihood Ratio Chi-Square 1 0.4718 0.4922
Continuity Adj. Chi-Square 1 0.2950 0.5871
Mantel-Haenszel Chi-Square 1 0.4792 0.4888
Phi Coefficient -0.0339
Contingency Coefficient 0.0339
Cramer's V -0.0339
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 41
Left-sided Pr <= F 0.2903
Right-sided Pr >= F 0.8015
Table Probability (P) 0.0918
Two-sided Pr <= P 0.5488
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.8167 0.4604 1.4488
Cohort (Col1 Risk) 0.8425 0.5199 1.3651
Cohort (Col2 Risk) 1.0315 0.9420 1.1296
Effective Sample Size = 418
Frequency Missing = 32
European-American COPD 11:59 Tuesday, June 18, 2002 19
SNP = NOD1.449861
Table of case_cn by gfreq8
case_cn gfreq8
Frequency|
Percent |AA |GA |GG | Total
---------+--------+--------+--------+
Case | 3 | 35 | 108 | 146
| 1.44 | 16.75 | 51.67 | 69.86
---------+--------+--------+--------+
Control | 3 | 15 | 45 | 63
| 1.44 | 7.18 | 21.53 | 30.14
---------+--------+--------+--------+
Total 6 50 153 209
2.87 23.92 73.21 100.00
Frequency Missing = 16
Statistics for Table of case_cn by gfreq8
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 1.1628 0.5591
Likelihood Ratio Chi-Square 2 1.0694 0.5859
Mantel-Haenszel Chi-Square 1 0.4539 0.5005
Phi Coefficient 0.0746
Contingency Coefficient 0.0744
Cramer's V 0.0746
WARNING: 33% of the cells have expected counts less than 5.
(Asymptotic) Chi-Square may not be a valid test.
Pearson Chi-Square Test
----------------------------------
Chi-Square 1.1628
DF 2
Asymptotic Pr > ChiSq 0.5591
Exact Pr >= ChiSq 0.6114
Effective Sample Size = 209
Frequency Missing = 16
European-American Asthma 11:59 Tuesday, June 18, 2002 20
SNP = 21291
Allele Frequency
Frequency|
Percent |A |G | Total
---------+--------+--------+
Case | 205 | 97 | 302
| 44.96 | 21.27 | 66.23
---------+--------+--------+
Control | 98 | 56 | 154
| 21.49 | 12.28 | 33.77
---------+--------+--------+
Total 303 153 456
66.45 33.55 100.00
Frequency Missing = 32
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.8241 0.3640
Likelihood Ratio Chi-Square 1 0.8191 0.3655
Continuity Adj. Chi-Square 1 0.6448 0.4220
Mantel-Haenszel Chi-Square 1 0.8223 0.3645
Phi Coefficient 0.0425
Contingency Coefficient 0.0425
Cramer's V 0.0425
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 205
Left-sided Pr <= F 0.8444
Right-sided Pr >= F 0.2106
Table Probability (P) 0.0550
Two-sided Pr <= P 0.4018
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.2077 0.8034 1.8154
Cohort (Col1 Risk) 1.0667 0.9251 1.2299
Cohort (Col2 Risk) 0.8833 0.6773 1.1520
Effective Sample Size = 456
Frequency Missing = 32
European-American Asthma 11:59 Tuesday, June 18, 2002 21
SNP = 21291
Allele Frequency
Frequency|
Percent |AA |GA |GG | Total
---------+--------+--------+--------+
Case | 67 | 71 | 13 | 151
| 29.39 | 31.14 | 5.70 | 66.23
---------+--------+--------+--------+
Control | 31 | 36 | 10 | 77
| 13.60 | 15.79 | 4.39 | 33.77
---------+--------+--------+--------+
Total 98 107 23 228
42.98 46.93 10.09 100.00
Frequency Missing = 16
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 1.1701 0.5571
Likelihood Ratio Chi-Square 2 1.1356 0.5668
Mantel-Haenszel Chi-Square 1 0.8660 0.3521
Phi Coefficient 0.0716
Contingency Coefficient 0.0715
Cramer's V 0.0716
Pearson Chi-Square Test
----------------------------------
Chi-Square 1.1701
DF 2
Asymptotic Pr > ChiSq 0.5571
Exact Pr >= ChiSq 0.5702
Effective Sample Size = 228
Frequency Missing = 16
European-American Asthma 11:59 Tuesday, June 18, 2002 22
SNP = 21415
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Case | 71 | 233 | 304
| 15.37 | 50.43 | 65.80
---------+--------+--------+
Control | 30 | 128 | 158
| 6.49 | 27.71 | 34.20
---------+--------+--------+
Total 101 361 462
21.86 78.14 100.00
Frequency Missing = 26
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 1.1612 0.2812
Likelihood Ratio Chi-Square 1 1.1809 0.2772
Continuity Adj. Chi-Square 1 0.9195 0.3376
Mantel-Haenszel Chi-Square 1 1.1587 0.2817
Phi Coefficient 0.0501
Contingency Coefficient 0.0501
Cramer's V 0.0501
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 71
Left-sided Pr <= F 0.8849
Right-sided Pr >= F 0.1689
Table Probability (P) 0.0538
Two-sided Pr <= P 0.3425
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.3001 0.8060 2.0973
Cohort (Col1 Risk) 1.2300 0.8403 1.8006
Cohort (Col2 Risk) 0.9461 0.8580 1.0432
Effective Sample Size = 462
Frequency Missing = 26
European-American Asthma 11:59 Tuesday, June 18, 2002 23
SNP = 21415
Allele Frequency
Frequency|
Percent |CC |CT |TT | Total
---------+--------+--------+--------+
Case | 11 | 49 | 92 | 152
| 4.76 | 21.21 | 39.83 | 65.80
---------+--------+--------+--------+
Control | 3 | 24 | 52 | 79
| 1.30 | 10.39 | 22.51 | 34.20
---------+--------+--------+--------+
Total 14 73 144 231
6.06 31.60 62.34 100.00
Frequency Missing = 13
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 1.3053 0.5207
Likelihood Ratio Chi-Square 2 1.3864 0.5000
Mantel-Haenszel Chi-Square 1 1.0755 0.2997
Phi Coefficient 0.0752
Contingency Coefficient 0.0750
Cramer's V 0.0752
Pearson Chi-Square Test
----------------------------------
Chi-Square 1.3053
DF 2
Asymptotic Pr > ChiSq 0.5207
Exact Pr >= ChiSq 0.5302
Effective Sample Size = 231
Frequency Missing = 13
European-American Asthma 11:59 Tuesday, June 18, 2002 24
SNP = 2733
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Case | 88 | 208 | 296
| 19.82 | 46.85 | 66.67
---------+--------+--------+
Control | 47 | 101 | 148
| 10.59 | 22.75 | 33.33
---------+--------+--------+
Total 135 309 444
30.41 69.59 100.00
Frequency Missing = 44
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.1916 0.6616
Likelihood Ratio Chi-Square 1 0.1908 0.6622
Continuity Adj. Chi-Square 1 0.1078 0.7427
Mantel-Haenszel Chi-Square 1 0.1912 0.6620
Phi Coefficient -0.0208
Contingency Coefficient 0.0208
Cramer's V -0.0208
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 88
Left-sided Pr <= F 0.3698
Right-sided Pr >= F 0.7090
Table Probability (P) 0.0787
Two-sided Pr <= P 0.6631
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.9092 0.5935 1.3927
Cohort (Col1 Risk) 0.9362 0.6977 1.2562
Cohort (Col2 Risk) 1.0297 0.9019 1.1756
Effective Sample Size = 444
Frequency Missing = 44
European-American Asthma 11:59 Tuesday, June 18, 2002 25
SNP = 2733
Allele Frequency
Frequency|
Percent |CC |CT |TT | Total
---------+--------+--------+--------+
Case | 14 | 60 | 74 | 148
| 6.31 | 27.03 | 33.33 | 66.67
---------+--------+--------+--------+
Control | 7 | 33 | 34 | 74
| 3.15 | 14.86 | 15.32 | 33.33
---------+--------+--------+--------+
Total 21 93 108 222
9.46 41.89 48.65 100.00
Frequency Missing = 22
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 0.3602 0.8352
Likelihood Ratio Chi-Square 2 0.3598 0.8353
Mantel-Haenszel Chi-Square 1 0.1888 0.6639
Phi Coefficient 0.0403
Contingency Coefficient 0.0402
Cramer's V 0.0403
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.3602
DF 2
Asymptotic Pr > ChiSq 0.8352
Exact Pr >= ChiSq 0.8529
Effective Sample Size = 222
Frequency Missing = 22
European-American Asthma 11:59 Tuesday, June 18, 2002 26
SNP = 421371
Allele Frequency
Frequency|
Percent |A |G | Total
---------+--------+--------+
Case | 156 | 66 | 222
| 45.35 | 19.19 | 64.53
---------+--------+--------+
Control | 75 | 47 | 122
| 21.80 | 13.66 | 35.47
---------+--------+--------+
Total 231 113 344
67.15 32.85 100.00
Frequency Missing = 144
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 2.7608 0.0966
Likelihood Ratio Chi-Square 1 2.7315 0.0984
Continuity Adj. Chi-Square 1 2.3765 0.1232
Mantel-Haenszel Chi-Square 1 2.7528 0.0971
Phi Coefficient 0.0896
Contingency Coefficient 0.0892
Cramer's V 0.0896
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 156
Left-sided Pr <= F 0.9620
Right-sided Pr >= F 0.0621
Table Probability (P) 0.0242
Two-sided Pr <= P 0.1186
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.4812 0.9308 2.3570
Cohort (Col1 Risk) 1.1431 0.9697 1.3474
Cohort (Col2 Risk) 0.7717 0.5706 1.0437
Effective Sample Size = 344
Frequency Missing = 144
WARNING: 30% of the data are missing.
European-American Asthma 11:59 Tuesday, June 18, 2002 27
SNP = 421371
Allele Frequency
Frequency|
Percent |AA |GA |GG | Total
---------+--------+--------+--------+
Case | 66 | 24 | 21 | 111
| 38.37 | 13.95 | 12.21 | 64.53
---------+--------+--------+--------+
Control | 29 | 17 | 15 | 61
| 16.86 | 9.88 | 8.72 | 35.47
---------+--------+--------+--------+
Total 95 41 36 172
55.23 23.84 20.93 100.00
Frequency Missing = 72
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 2.2619 0.3227
Likelihood Ratio Chi-Square 2 2.2578 0.3234
Mantel-Haenszel Chi-Square 1 1.8804 0.1703
Phi Coefficient 0.1147
Contingency Coefficient 0.1139
Cramer's V 0.1147
Pearson Chi-Square Test
----------------------------------
Chi-Square 2.2619
DF 2
Asymptotic Pr > ChiSq 0.3227
Exact Pr >= ChiSq 0.3134
Effective Sample Size = 172
Frequency Missing = 72
WARNING: 30% of the data are missing.
European-American Asthma 11:59 Tuesday, June 18, 2002 28
SNP = 426160
Allele Frequency
Frequency|
Percent |G | Total
---------+--------+
Case | 310 | 310
| 66.24 | 66.24
---------+--------+
Control | 158 | 158
| 33.76 | 33.76
---------+--------+
Total 468 468
100.00 100.00
Frequency Missing = 20
European-American Asthma 11:59 Tuesday, June 18, 2002 29
SNP = 426160
Allele Frequency
Frequency|
Percent |GG | Total
---------+--------+
Case | 155 | 155
| 66.24 | 66.24
---------+--------+
Control | 79 | 79
| 33.76 | 33.76
---------+--------+
Total 234 234
100.00 100.00
Frequency Missing = 10
European-American Asthma 11:59 Tuesday, June 18, 2002 30
SNP = 426766
Allele Frequency
Frequency|
Percent |A |G | Total
---------+--------+--------+
Case | 63 | 179 | 242
| 16.84 | 47.86 | 64.71
---------+--------+--------+
Control | 39 | 93 | 132
| 10.43 | 24.87 | 35.29
---------+--------+--------+
Total 102 272 374
27.27 72.73 100.00
Frequency Missing = 114
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.5313 0.4661
Likelihood Ratio Chi-Square 1 0.5274 0.4677
Continuity Adj. Chi-Square 1 0.3689 0.5436
Mantel-Haenszel Chi-Square 1 0.5298 0.4667
Phi Coefficient -0.0377
Contingency Coefficient 0.0377
Cramer's V -0.0377
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 63
Left-sided Pr <= F 0.2707
Right-sided Pr >= F 0.8028
Table Probability (P) 0.0735
Two-sided Pr <= P 0.4687
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.8393 0.5238 1.3448
Cohort (Col1 Risk) 0.8811 0.6282 1.2359
Cohort (Col2 Risk) 1.0499 0.9188 1.1997
Effective Sample Size = 374
Frequency Missing = 114
WARNING: 23% of the data are missing.
European-American Asthma 11:59 Tuesday, June 18, 2002 31
SNP = 426766
Allele Frequency
Frequency|
Percent |AA |GA |GG | Total
---------+--------+--------+--------+
Case | 11 | 41 | 69 | 121
| 5.88 | 21.93 | 36.90 | 64.71
---------+--------+--------+--------+
Control | 7 | 25 | 34 | 66
| 3.74 | 13.37 | 18.18 | 35.29
---------+--------+--------+--------+
Total 18 66 103 187
9.63 35.29 55.08 100.00
Frequency Missing = 57
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 0.5303 0.7671
Likelihood Ratio Chi-Square 2 0.5293 0.7675
Mantel-Haenszel Chi-Square 1 0.4759 0.4903
Phi Coefficient 0.0533
Contingency Coefficient 0.0532
Cramer's V 0.0533
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.5303
DF 2
Asymptotic Pr > ChiSq 0.7671
Exact Pr >= ChiSq 0.8070
Effective Sample Size = 187
Frequency Missing = 57
WARNING: 23% of the data are missing.
European-American Asthma 11:59 Tuesday, June 18, 2002 32
SNP = 432336
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Case | 83 | 221 | 304
| 18.20 | 48.46 | 66.67
---------+--------+--------+
Control | 32 | 120 | 152
| 7.02 | 26.32 | 33.33
---------+--------+--------+
Total 115 341 456
25.22 74.78 100.00
Frequency Missing = 32
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 2.0989 0.1474
Likelihood Ratio Chi-Square 1 2.1433 0.1432
Continuity Adj. Chi-Square 1 1.7806 0.1821
Mantel-Haenszel Chi-Square 1 2.0943 0.1479
Phi Coefficient 0.0678
Contingency Coefficient 0.0677
Cramer's V 0.0678
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 83
Left-sided Pr <= F 0.9422
Right-sided Pr >= F 0.0901
Table Probability (P) 0.0324
Two-sided Pr <= P 0.1701
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.4084 0.8851 2.2409
Cohort (Col1 Risk) 1.2969 0.9063 1.8558
Cohort (Col2 Risk) 0.9208 0.8273 1.0250
Effective Sample Size = 456
Frequency Missing = 32
European-American Asthma 11:59 Tuesday, June 18, 2002 33
SNP = 432336
Table of case_cn by gfreq7
case_cn gfreq7
Frequency|
Percent |CC |CT |TT | Total
---------+--------+--------+--------+
Case | 14 | 55 | 83 | 152
| 6.14 | 24.12 | 36.40 | 66.67
---------+--------+--------+--------+
Control | 4 | 24 | 48 | 76
| 1.75 | 10.53 | 21.05 | 33.33
---------+--------+--------+--------+
Total 18 79 131 228
7.89 34.65 57.46 100.00
Frequency Missing = 16
Statistics for Table of case_cn by gfreq7
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 1.9552 0.3762
Likelihood Ratio Chi-Square 2 2.0227 0.3637
Mantel-Haenszel Chi-Square 1 1.9324 0.1645
Phi Coefficient 0.0926
Contingency Coefficient 0.0922
Cramer's V 0.0926
Pearson Chi-Square Test
----------------------------------
Chi-Square 1.9552
DF 2
Asymptotic Pr > ChiSq 0.3762
Exact Pr >= ChiSq 0.3794
Effective Sample Size = 228
Frequency Missing = 16
European-American Asthma 11:59 Tuesday, June 18, 2002 34
SNP = NOD1.449861
Allele Frequency
Frequency|
Percent |A |G | Total
---------+--------+--------+
Case | 43 | 265 | 308
| 9.23 | 56.87 | 66.09
---------+--------+--------+
Control | 19 | 139 | 158
| 4.08 | 29.83 | 33.91
---------+--------+--------+
Total 62 404 466
13.30 86.70 100.00
Frequency Missing = 22
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.3392 0.5603
Likelihood Ratio Chi-Square 1 0.3441 0.5575
Continuity Adj. Chi-Square 1 0.1922 0.6611
Mantel-Haenszel Chi-Square 1 0.3385 0.5607
Phi Coefficient 0.0270
Contingency Coefficient 0.0270
Cramer's V 0.0270
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 43
Left-sided Pr <= F 0.7644
Right-sided Pr >= F 0.3341
Table Probability (P) 0.0985
Two-sided Pr <= P 0.6659
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.1871 0.6662 2.1152
Cohort (Col1 Risk) 1.1610 0.7009 1.9232
Cohort (Col2 Risk) 0.9780 0.9090 1.0522
Effective Sample Size = 466
Frequency Missing = 22
European-American Asthma 11:59 Tuesday, June 18, 2002 35
SNP = NOD1.449861
Table of case_cn by gfreq8
case_cn gfreq8
Frequency|
Percent |AA |GA |GG | Total
---------+--------+--------+--------+
Case | 3 | 37 | 114 | 154
| 1.29 | 15.88 | 48.93 | 66.09
---------+--------+--------+--------+
Control | 0 | 19 | 60 | 79
| 0.00 | 8.15 | 25.75 | 33.91
---------+--------+--------+--------+
Total 3 56 174 233
1.29 24.03 74.68 100.00
Frequency Missing = 11
Statistics for Table of case_cn by gfreq8
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 1.5648 0.4573
Likelihood Ratio Chi-Square 2 2.5103 0.2850
Mantel-Haenszel Chi-Square 1 0.3525 0.5527
Phi Coefficient 0.0820
Contingency Coefficient 0.0817
Cramer's V 0.0820
WARNING: 33% of the cells have expected counts less than 5.
(Asymptotic) Chi-Square may not be a valid test.
Pearson Chi-Square Test
----------------------------------
Chi-Square 1.5648
DF 2
Asymptotic Pr > ChiSq 0.4573
Exact Pr >= ChiSq 0.6091
Effective Sample Size = 233
Frequency Missing = 11
European-American MI 11:59 Tuesday, June 18, 2002 36
SNP = 21291
Allele Frequency
Frequency|
Percent |A |G | Total
---------+--------+--------+
Case | 177 | 77 | 254
| 46.83 | 20.37 | 67.20
---------+--------+--------+
Control | 93 | 31 | 124
| 24.60 | 8.20 | 32.80
---------+--------+--------+
Total 270 108 378
71.43 28.57 100.00
Frequency Missing = 42
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 1.1533 0.2828
Likelihood Ratio Chi-Square 1 1.1699 0.2794
Continuity Adj. Chi-Square 1 0.9076 0.3407
Mantel-Haenszel Chi-Square 1 1.1503 0.2835
Phi Coefficient -0.0552
Contingency Coefficient 0.0552
Cramer's V -0.0552
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 177
Left-sided Pr <= F 0.1705
Right-sided Pr >= F 0.8846
Table Probability (P) 0.0551
Two-sided Pr <= P 0.3322
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.7662 0.4710 1.2465
Cohort (Col1 Risk) 0.9291 0.8158 1.0581
Cohort (Col2 Risk) 1.2126 0.8482 1.7335
Effective Sample Size = 378
Frequency Missing = 42
European-American MI 11:59 Tuesday, June 18, 2002 37
SNP = 21291
Allele Frequency
Frequency|
Percent |AA |GA |GG | Total
---------+--------+--------+--------+
Case | 59 | 59 | 9 | 127
| 31.22 | 31.22 | 4.76 | 67.20
---------+--------+--------+--------+
Control | 35 | 23 | 4 | 62
| 18.52 | 12.17 | 2.12 | 32.80
---------+--------+--------+--------+
Total 94 82 13 189
49.74 43.39 6.88 100.00
Frequency Missing = 21
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 1.7025 0.4269
Likelihood Ratio Chi-Square 2 1.7085 0.4256
Mantel-Haenszel Chi-Square 1 1.2243 0.2685
Phi Coefficient 0.0949
Contingency Coefficient 0.0945
Cramer's V 0.0949
Pearson Chi-Square Test
----------------------------------
Chi-Square 1.7025
DF 2
Asymptotic Pr > ChiSq 0.4269
Exact Pr >= ChiSq 0.4368
Effective Sample Size = 189
Frequency Missing = 21
European-American MI 11:59 Tuesday, June 18, 2002 38
SNP = 21415
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Case | 56 | 204 | 260
| 14.51 | 52.85 | 67.36
---------+--------+--------+
Control | 34 | 92 | 126
| 8.81 | 23.83 | 32.64
---------+--------+--------+
Total 90 296 386
23.32 76.68 100.00
Frequency Missing = 34
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 1.4077 0.2354
Likelihood Ratio Chi-Square 1 1.3844 0.2394
Continuity Adj. Chi-Square 1 1.1196 0.2900
Mantel-Haenszel Chi-Square 1 1.4040 0.2361
Phi Coefficient -0.0604
Contingency Coefficient 0.0603
Cramer's V -0.0604
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 56
Left-sided Pr <= F 0.1452
Right-sided Pr >= F 0.9049
Table Probability (P) 0.0501
Two-sided Pr <= P 0.2495
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.7428 0.4541 1.2150
Cohort (Col1 Risk) 0.7982 0.5518 1.1547
Cohort (Col2 Risk) 1.0746 0.9495 1.2162
Effective Sample Size = 386
Frequency Missing = 34
European-American MI 11:59 Tuesday, June 18, 2002 39
SNP = 21415
Allele Frequency
Frequency|
Percent |CC |CT |TT | Total
---------+--------+--------+--------+
Case | 5 | 46 | 79 | 130
| 2.59 | 23.83 | 40.93 | 67.36
---------+--------+--------+--------+
Control | 6 | 22 | 35 | 63
| 3.11 | 11.40 | 18.13 | 32.64
---------+--------+--------+--------+
Total 11 68 114 193
5.70 35.23 59.07 100.00
Frequency Missing = 17
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 2.5980 0.2728
Likelihood Ratio Chi-Square 2 2.4280 0.2970
Mantel-Haenszel Chi-Square 1 1.3801 0.2401
Phi Coefficient 0.1160
Contingency Coefficient 0.1152
Cramer's V 0.1160
Pearson Chi-Square Test
----------------------------------
Chi-Square 2.5980
DF 2
Asymptotic Pr > ChiSq 0.2728
Exact Pr >= ChiSq 0.3042
Effective Sample Size = 193
Frequency Missing = 17
European-American MI 11:59 Tuesday, June 18, 2002 40
SNP = 2733
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Case | 60 | 198 | 258
| 15.71 | 51.83 | 67.54
---------+--------+--------+
Control | 27 | 97 | 124
| 7.07 | 25.39 | 32.46
---------+--------+--------+
Total 87 295 382
22.77 77.23 100.00
Frequency Missing = 38
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.1045 0.7465
Likelihood Ratio Chi-Square 1 0.1051 0.7458
Continuity Adj. Chi-Square 1 0.0373 0.8469
Mantel-Haenszel Chi-Square 1 0.1043 0.7468
Phi Coefficient 0.0165
Contingency Coefficient 0.0165
Cramer's V 0.0165
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 60
Left-sided Pr <= F 0.6724
Right-sided Pr >= F 0.4267
Table Probability (P) 0.0991
Two-sided Pr <= P 0.7954
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.0887 0.6504 1.8222
Cohort (Col1 Risk) 1.0680 0.7155 1.5942
Cohort (Col2 Risk) 0.9811 0.8748 1.1002
Effective Sample Size = 382
Frequency Missing = 38
European-American MI 11:59 Tuesday, June 18, 2002 41
SNP = 2733
Allele Frequency
Frequency|
Percent |CC |CT |TT | Total
---------+--------+--------+--------+
Case | 7 | 46 | 76 | 129
| 3.66 | 24.08 | 39.79 | 67.54
---------+--------+--------+--------+
Control | 5 | 17 | 40 | 62
| 2.62 | 8.90 | 20.94 | 32.46
---------+--------+--------+--------+
Total 12 63 116 191
6.28 32.98 60.73 100.00
Frequency Missing = 19
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 1.5421 0.4625
Likelihood Ratio Chi-Square 2 1.5497 0.4608
Mantel-Haenszel Chi-Square 1 0.0979 0.7544
Phi Coefficient 0.0899
Contingency Coefficient 0.0895
Cramer's V 0.0899
Pearson Chi-Square Test
----------------------------------
Chi-Square 1.5421
DF 2
Asymptotic Pr > ChiSq 0.4625
Exact Pr >= ChiSq 0.4846
Effective Sample Size = 191
Frequency Missing = 19
European-American MI 11:59 Tuesday, June 18, 2002 42
SNP = 421371
Allele Frequency
Frequency|
Percent |A |G | Total
---------+--------+--------+
Case | 107 | 85 | 192
| 36.90 | 29.31 | 66.21
---------+--------+--------+
Control | 64 | 34 | 98
| 22.07 | 11.72 | 33.79
---------+--------+--------+
Total 171 119 290
58.97 41.03 100.00
Frequency Missing = 130
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 2.4594 0.1168
Likelihood Ratio Chi-Square 1 2.4844 0.1150
Continuity Adj. Chi-Square 1 2.0796 0.1493
Mantel-Haenszel Chi-Square 1 2.4510 0.1175
Phi Coefficient -0.0921
Contingency Coefficient 0.0917
Cramer's V -0.0921
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 107
Left-sided Pr <= F 0.0742
Right-sided Pr >= F 0.9555
Table Probability (P) 0.0297
Two-sided Pr <= P 0.1308
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.6688 0.4040 1.1071
Cohort (Col1 Risk) 0.8534 0.7045 1.0336
Cohort (Col2 Risk) 1.2760 0.9316 1.7478
Effective Sample Size = 290
Frequency Missing = 130
WARNING: 31% of the data are missing.
European-American MI 11:59 Tuesday, June 18, 2002 43
SNP = 421371
Allele Frequency
Frequency|
Percent |AA |GA |GG | Total
---------+--------+--------+--------+
Case | 39 | 29 | 28 | 96
| 26.90 | 20.00 | 19.31 | 66.21
---------+--------+--------+--------+
Control | 26 | 12 | 11 | 49
| 17.93 | 8.28 | 7.59 | 33.79
---------+--------+--------+--------+
Total 65 41 39 145
44.83 28.28 26.90 100.00
Frequency Missing = 65
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 2.0388 0.3608
Likelihood Ratio Chi-Square 2 2.0354 0.3614
Mantel-Haenszel Chi-Square 1 1.7253 0.1890
Phi Coefficient 0.1186
Contingency Coefficient 0.1178
Cramer's V 0.1186
Pearson Chi-Square Test
----------------------------------
Chi-Square 2.0388
DF 2
Asymptotic Pr > ChiSq 0.3608
Exact Pr >= ChiSq 0.3779
Effective Sample Size = 145
Frequency Missing = 65
WARNING: 31% of the data are missing.
European-American MI 11:59 Tuesday, June 18, 2002 44
SNP = 426160
Allele Frequency
Frequency|
Percent |G | Total
---------+--------+
Case | 272 | 272
| 67.66 | 67.66
---------+--------+
Control | 130 | 130
| 32.34 | 32.34
---------+--------+
Total 402 402
100.00 100.00
Frequency Missing = 18
European-American MI 11:59 Tuesday, June 18, 2002 45
SNP = 426160
Allele Frequency
Frequency|
Percent |GG | Total
---------+--------+
Case | 136 | 136
| 67.66 | 67.66
---------+--------+
Control | 65 | 65
| 32.34 | 32.34
---------+--------+
Total 201 201
100.00 100.00
Frequency Missing = 9
European-American MI 11:59 Tuesday, June 18, 2002 46
SNP = 426766
Allele Frequency
Frequency|
Percent |A |G | Total
---------+--------+--------+
Case | 63 | 165 | 228
| 18.98 | 49.70 | 68.67
---------+--------+--------+
Control | 21 | 83 | 104
| 6.33 | 25.00 | 31.33
---------+--------+--------+
Total 84 248 332
25.30 74.70 100.00
Frequency Missing = 88
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 2.0914 0.1481
Likelihood Ratio Chi-Square 1 2.1513 0.1425
Continuity Adj. Chi-Square 1 1.7163 0.1902
Mantel-Haenszel Chi-Square 1 2.0851 0.1487
Phi Coefficient 0.0794
Contingency Coefficient 0.0791
Cramer's V 0.0794
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 63
Left-sided Pr <= F 0.9449
Right-sided Pr >= F 0.0939
Table Probability (P) 0.0388
Two-sided Pr <= P 0.1740
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.5091 0.8621 2.6416
Cohort (Col1 Risk) 1.3684 0.8848 2.1163
Cohort (Col2 Risk) 0.9068 0.7997 1.0282
Effective Sample Size = 332
Frequency Missing = 88
WARNING: 21% of the data are missing.
European-American MI 11:59 Tuesday, June 18, 2002 47
SNP = 426766
Allele Frequency
Frequency|
Percent |AA |GA |GG | Total
---------+--------+--------+--------+
Case | 6 | 51 | 57 | 114
| 3.61 | 30.72 | 34.34 | 68.67
---------+--------+--------+--------+
Control | 1 | 19 | 32 | 52
| 0.60 | 11.45 | 19.28 | 31.33
---------+--------+--------+--------+
Total 7 70 89 166
4.22 42.17 53.61 100.00
Frequency Missing = 44
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 2.4007 0.3011
Likelihood Ratio Chi-Square 2 2.5390 0.2810
Mantel-Haenszel Chi-Square 1 2.3505 0.1252
Phi Coefficient 0.1203
Contingency Coefficient 0.1194
Cramer's V 0.1203
WARNING: 33% of the cells have expected counts less than 5.
(Asymptotic) Chi-Square may not be a valid test.
Pearson Chi-Square Test
----------------------------------
Chi-Square 2.4007
DF 2
Asymptotic Pr > ChiSq 0.3011
Exact Pr >= ChiSq 0.3269
Effective Sample Size = 166
Frequency Missing = 44
WARNING: 21% of the data are missing.
European-American MI 11:59 Tuesday, June 18, 2002 48
SNP = 432336
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Case | 70 | 184 | 254
| 18.52 | 48.68 | 67.20
---------+--------+--------+
Control | 31 | 93 | 124
| 8.20 | 24.60 | 32.80
---------+--------+--------+
Total 101 277 378
26.72 73.28 100.00
Frequency Missing = 42
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.2787 0.5976
Likelihood Ratio Chi-Square 1 0.2807 0.5962
Continuity Adj. Chi-Square 1 0.1633 0.6861
Mantel-Haenszel Chi-Square 1 0.2779 0.5981
Phi Coefficient 0.0272
Contingency Coefficient 0.0271
Cramer's V 0.0272
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 70
Left-sided Pr <= F 0.7414
Right-sided Pr >= F 0.3452
Table Probability (P) 0.0866
Two-sided Pr <= P 0.6227
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.1413 0.6986 1.8646
Cohort (Col1 Risk) 1.1024 0.7658 1.5868
Cohort (Col2 Risk) 0.9659 0.8508 1.0965
Effective Sample Size = 378
Frequency Missing = 42
European-American MI 11:59 Tuesday, June 18, 2002 49
SNP = 432336
Table of case_cn by gfreq7
case_cn gfreq7
Frequency|
Percent |CC |CT |TT | Total
---------+--------+--------+--------+
Case | 17 | 36 | 74 | 127
| 8.99 | 19.05 | 39.15 | 67.20
---------+--------+--------+--------+
Control | 4 | 23 | 35 | 62
| 2.12 | 12.17 | 18.52 | 32.80
---------+--------+--------+--------+
Total 21 59 109 189
11.11 31.22 57.67 100.00
Frequency Missing = 21
Statistics for Table of case_cn by gfreq7
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 2.8486 0.2407
Likelihood Ratio Chi-Square 2 3.0007 0.2231
Mantel-Haenszel Chi-Square 1 0.2305 0.6312
Phi Coefficient 0.1228
Contingency Coefficient 0.1219
Cramer's V 0.1228
Pearson Chi-Square Test
----------------------------------
Chi-Square 2.8486
DF 2
Asymptotic Pr > ChiSq 0.2407
Exact Pr >= ChiSq 0.2278
Effective Sample Size = 189
Frequency Missing = 21
European-American MI 11:59 Tuesday, June 18, 2002 50
SNP = NOD1.449861
Allele Frequency
Frequency|
Percent |A |G | Total
---------+--------+--------+
Case | 47 | 221 | 268
| 11.75 | 55.25 | 67.00
---------+--------+--------+
Control | 19 | 113 | 132
| 4.75 | 28.25 | 33.00
---------+--------+--------+
Total 66 334 400
16.50 83.50 100.00
Frequency Missing = 20
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.6343 0.4258
Likelihood Ratio Chi-Square 1 0.6464 0.4214
Continuity Adj. Chi-Square 1 0.4266 0.5136
Mantel-Haenszel Chi-Square 1 0.6327 0.4264
Phi Coefficient 0.0398
Contingency Coefficient 0.0398
Cramer's V 0.0398
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 47
Left-sided Pr <= F 0.8260
Right-sided Pr >= F 0.2590
Table Probability (P) 0.0850
Two-sided Pr <= P 0.4757
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.2648 0.7089 2.2569
Cohort (Col1 Risk) 1.2184 0.7461 1.9896
Cohort (Col2 Risk) 0.9633 0.8812 1.0531
Effective Sample Size = 400
Frequency Missing = 20
European-American MI 11:59 Tuesday, June 18, 2002 51
SNP = NOD1.449861
Table of case_cn by gfreq8
case_cn gfreq8
Frequency|
Percent |AA |GA |GG | Total
---------+--------+--------+--------+
Case | 7 | 33 | 94 | 134
| 3.50 | 16.50 | 47.00 | 67.00
---------+--------+--------+--------+
Control | 2 | 15 | 49 | 66
| 1.00 | 7.50 | 24.50 | 33.00
---------+--------+--------+--------+
Total 9 48 143 200
4.50 24.00 71.50 100.00
Frequency Missing = 10
Statistics for Table of case_cn by gfreq8
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 0.6429 0.7251
Likelihood Ratio Chi-Square 2 0.6767 0.7129
Mantel-Haenszel Chi-Square 1 0.5590 0.4547
Phi Coefficient 0.0567
Contingency Coefficient 0.0566
Cramer's V 0.0567
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.6429
DF 2
Asymptotic Pr > ChiSq 0.7251
Exact Pr >= ChiSq 0.7037
Effective Sample Size = 200
Frequency Missing = 10
European-American DVT 11:59 Tuesday, June 18, 2002 52
SNP = 21291
Allele Frequency
Frequency|
Percent |A |G | Total
---------+--------+--------+
Case | 99 | 33 | 132
| 37.22 | 12.41 | 49.62
---------+--------+--------+
Control | 99 | 35 | 134
| 37.22 | 13.16 | 50.38
---------+--------+--------+
Total 198 68 266
74.44 25.56 100.00
Frequency Missing = 14
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.0438 0.8342
Likelihood Ratio Chi-Square 1 0.0438 0.8342
Continuity Adj. Chi-Square 1 0.0047 0.9452
Mantel-Haenszel Chi-Square 1 0.0436 0.8346
Phi Coefficient 0.0128
Contingency Coefficient 0.0128
Cramer's V 0.0128
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 99
Left-sided Pr <= F 0.6366
Right-sided Pr >= F 0.4727
Table Probability (P) 0.1093
Two-sided Pr <= P 0.8886
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.0606 0.6112 1.8404
Cohort (Col1 Risk) 1.0152 0.8818 1.1687
Cohort (Col2 Risk) 0.9571 0.6350 1.4428
Effective Sample Size = 266
Frequency Missing = 14
European-American DVT 11:59 Tuesday, June 18, 2002 53
SNP = 21291
Allele Frequency
Frequency|
Percent |AA |GA |GG | Total
---------+--------+--------+--------+
Case | 36 | 27 | 3 | 66
| 27.07 | 20.30 | 2.26 | 49.62
---------+--------+--------+--------+
Control | 37 | 25 | 5 | 67
| 27.82 | 18.80 | 3.76 | 50.38
---------+--------+--------+--------+
Total 73 52 8 133
54.89 39.10 6.02 100.00
Frequency Missing = 7
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 0.5831 0.7471
Likelihood Ratio Chi-Square 2 0.5885 0.7451
Mantel-Haenszel Chi-Square 1 0.0447 0.8326
Phi Coefficient 0.0662
Contingency Coefficient 0.0661
Cramer's V 0.0662
WARNING: 33% of the cells have expected counts less than 5.
(Asymptotic) Chi-Square may not be a valid test.
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.5831
DF 2
Asymptotic Pr > ChiSq 0.7471
Exact Pr >= ChiSq 0.8184
Effective Sample Size = 133
Frequency Missing = 7
European-American DVT 11:59 Tuesday, June 18, 2002 54
SNP = 21415
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Case | 26 | 110 | 136
| 9.42 | 39.86 | 49.28
---------+--------+--------+
Control | 36 | 104 | 140
| 13.04 | 37.68 | 50.72
---------+--------+--------+
Total 62 214 276
22.46 77.54 100.00
Frequency Missing = 4
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 1.7235 0.1892
Likelihood Ratio Chi-Square 1 1.7302 0.1884
Continuity Adj. Chi-Square 1 1.3656 0.2426
Mantel-Haenszel Chi-Square 1 1.7173 0.1900
Phi Coefficient -0.0790
Contingency Coefficient 0.0788
Cramer's V -0.0790
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 26
Left-sided Pr <= F 0.1212
Right-sided Pr >= F 0.9277
Table Probability (P) 0.0489
Two-sided Pr <= P 0.1978
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.6828 0.3857 1.2089
Cohort (Col1 Risk) 0.7435 0.4760 1.1611
Cohort (Col2 Risk) 1.0888 0.9588 1.2365
Effective Sample Size = 276
Frequency Missing = 4
European-American DVT 11:59 Tuesday, June 18, 2002 55
SNP = 21415
Allele Frequency
Frequency|
Percent |CC |CT |TT | Total
---------+--------+--------+--------+
Case | 2 | 22 | 44 | 68
| 1.45 | 15.94 | 31.88 | 49.28
---------+--------+--------+--------+
Control | 3 | 30 | 37 | 70
| 2.17 | 21.74 | 26.81 | 50.72
---------+--------+--------+--------+
Total 5 52 81 138
3.62 37.68 58.70 100.00
Frequency Missing = 2
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 2.0071 0.3666
Likelihood Ratio Chi-Square 2 2.0137 0.3654
Mantel-Haenszel Chi-Square 1 1.8633 0.1722
Phi Coefficient 0.1206
Contingency Coefficient 0.1197
Cramer's V 0.1206
WARNING: 33% of the cells have expected counts less than 5.
(Asymptotic) Chi-Square may not be a valid test.
Pearson Chi-Square Test
----------------------------------
Chi-Square 2.0071
DF 2
Asymptotic Pr > ChiSq 0.3666
Exact Pr >= ChiSq 0.3975
Effective Sample Size = 138
Frequency Missing = 2
European-American DVT 11:59 Tuesday, June 18, 2002 56
SNP = 2733
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Case | 34 | 98 | 132
| 12.78 | 36.84 | 49.62
---------+--------+--------+
Control | 36 | 98 | 134
| 13.53 | 36.84 | 50.38
---------+--------+--------+
Total 70 196 266
26.32 73.68 100.00
Frequency Missing = 14
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.0421 0.8374
Likelihood Ratio Chi-Square 1 0.0421 0.8374
Continuity Adj. Chi-Square 1 0.0044 0.9474
Mantel-Haenszel Chi-Square 1 0.0419 0.8377
Phi Coefficient -0.0126
Contingency Coefficient 0.0126
Cramer's V -0.0126
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 34
Left-sided Pr <= F 0.4738
Right-sided Pr >= F 0.6346
Table Probability (P) 0.1084
Two-sided Pr <= P 0.8896
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.9444 0.5471 1.6304
Cohort (Col1 Risk) 0.9588 0.6411 1.4337
Cohort (Col2 Risk) 1.0152 0.8793 1.1719
Effective Sample Size = 266
Frequency Missing = 14
European-American DVT 11:59 Tuesday, June 18, 2002 57
SNP = 2733
Allele Frequency
Frequency|
Percent |CC |CT |TT | Total
---------+--------+--------+--------+
Case | 3 | 28 | 35 | 66
| 2.26 | 21.05 | 26.32 | 49.62
---------+--------+--------+--------+
Control | 5 | 26 | 36 | 67
| 3.76 | 19.55 | 27.07 | 50.38
---------+--------+--------+--------+
Total 8 54 71 133
6.02 40.60 53.38 100.00
Frequency Missing = 7
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 0.5807 0.7480
Likelihood Ratio Chi-Square 2 0.5860 0.7460
Mantel-Haenszel Chi-Square 1 0.0438 0.8341
Phi Coefficient 0.0661
Contingency Coefficient 0.0659
Cramer's V 0.0661
WARNING: 33% of the cells have expected counts less than 5.
(Asymptotic) Chi-Square may not be a valid test.
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.5807
DF 2
Asymptotic Pr > ChiSq 0.7480
Exact Pr >= ChiSq 0.8191
Effective Sample Size = 133
Frequency Missing = 7
European-American DVT 11:59 Tuesday, June 18, 2002 58
SNP = 421371
Allele Frequency
Frequency|
Percent |A |G | Total
---------+--------+--------+
Case | 77 | 13 | 90
| 37.75 | 6.37 | 44.12
---------+--------+--------+
Control | 85 | 29 | 114
| 41.67 | 14.22 | 55.88
---------+--------+--------+
Total 162 42 204
79.41 20.59 100.00
Frequency Missing = 76
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 3.7182 0.0538
Likelihood Ratio Chi-Square 1 3.8171 0.0507
Continuity Adj. Chi-Square 1 3.0762 0.0794
Mantel-Haenszel Chi-Square 1 3.7000 0.0544
Phi Coefficient 0.1350
Contingency Coefficient 0.1338
Cramer's V 0.1350
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 77
Left-sided Pr <= F 0.9833
Right-sided Pr >= F 0.0386
Table Probability (P) 0.0219
Two-sided Pr <= P 0.0575
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 2.0208 0.9805 4.1650
Cohort (Col1 Risk) 1.1475 1.0008 1.3156
Cohort (Col2 Risk) 0.5678 0.3138 1.0274
Effective Sample Size = 204
Frequency Missing = 76
WARNING: 27% of the data are missing.
European-American DVT 11:59 Tuesday, June 18, 2002 59
SNP = 421371
Allele Frequency
Frequency|
Percent |AA |GA |GG | Total
---------+--------+--------+--------+
Case | 34 | 9 | 2 | 45
| 33.33 | 8.82 | 1.96 | 44.12
---------+--------+--------+--------+
Control | 35 | 15 | 7 | 57
| 34.31 | 14.71 | 6.86 | 55.88
---------+--------+--------+--------+
Total 69 24 9 102
67.65 23.53 8.82 100.00
Frequency Missing = 38
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 2.9209 0.2321
Likelihood Ratio Chi-Square 2 3.0574 0.2168
Mantel-Haenszel Chi-Square 1 2.8754 0.0899
Phi Coefficient 0.1692
Contingency Coefficient 0.1669
Cramer's V 0.1692
Pearson Chi-Square Test
----------------------------------
Chi-Square 2.9209
DF 2
Asymptotic Pr > ChiSq 0.2321
Exact Pr >= ChiSq 0.2310
Effective Sample Size = 102
Frequency Missing = 38
WARNING: 27% of the data are missing.
European-American DVT 11:59 Tuesday, June 18, 2002 60
SNP = 426160
Allele Frequency
Frequency|
Percent |G | Total
---------+--------+
Case | 134 | 134
| 48.91 | 48.91
---------+--------+
Control | 140 | 140
| 51.09 | 51.09
---------+--------+
Total 274 274
100.00 100.00
Frequency Missing = 6
European-American DVT 11:59 Tuesday, June 18, 2002 61
SNP = 426160
Allele Frequency
Frequency|
Percent |GG | Total
---------+--------+
Case | 67 | 67
| 48.91 | 48.91
---------+--------+
Control | 70 | 70
| 51.09 | 51.09
---------+--------+
Total 137 137
100.00 100.00
Frequency Missing = 3
European-American DVT 11:59 Tuesday, June 18, 2002 62
SNP = 426766
Allele Frequency
Frequency|
Percent |A |G | Total
---------+--------+--------+
Case | 19 | 111 | 130
| 7.14 | 41.73 | 48.87
---------+--------+--------+
Control | 29 | 107 | 136
| 10.90 | 40.23 | 51.13
---------+--------+--------+
Total 48 218 266
18.05 81.95 100.00
Frequency Missing = 14
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 2.0224 0.1550
Likelihood Ratio Chi-Square 1 2.0367 0.1535
Continuity Adj. Chi-Square 1 1.5943 0.2067
Mantel-Haenszel Chi-Square 1 2.0148 0.1558
Phi Coefficient -0.0872
Contingency Coefficient 0.0869
Cramer's V -0.0872
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 19
Left-sided Pr <= F 0.1031
Right-sided Pr >= F 0.9436
Table Probability (P) 0.0467
Two-sided Pr <= P 0.2017
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.6316 0.3342 1.1936
Cohort (Col1 Risk) 0.6854 0.4050 1.1600
Cohort (Col2 Risk) 1.0853 0.9695 1.2148
Effective Sample Size = 266
Frequency Missing = 14
European-American DVT 11:59 Tuesday, June 18, 2002 63
SNP = 426766
Allele Frequency
Frequency|
Percent |AA |GA |GG | Total
---------+--------+--------+--------+
Case | 0 | 19 | 46 | 65
| 0.00 | 14.29 | 34.59 | 48.87
---------+--------+--------+--------+
Control | 4 | 21 | 43 | 68
| 3.01 | 15.79 | 32.33 | 51.13
---------+--------+--------+--------+
Total 4 40 89 133
3.01 30.08 66.92 100.00
Frequency Missing = 7
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 4.1356 0.1265
Likelihood Ratio Chi-Square 2 5.6787 0.0585
Mantel-Haenszel Chi-Square 1 2.0416 0.1531
Phi Coefficient 0.1763
Contingency Coefficient 0.1737
Cramer's V 0.1763
WARNING: 33% of the cells have expected counts less than 5.
(Asymptotic) Chi-Square may not be a valid test.
Pearson Chi-Square Test
----------------------------------
Chi-Square 4.1356
DF 2
Asymptotic Pr > ChiSq 0.1265
Exact Pr >= ChiSq 0.1653
Effective Sample Size = 133
Frequency Missing = 7
European-American DVT 11:59 Tuesday, June 18, 2002 64
SNP = 432336
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Case | 33 | 99 | 132
| 12.41 | 37.22 | 49.62
---------+--------+--------+
Control | 40 | 94 | 134
| 15.04 | 35.34 | 50.38
---------+--------+--------+
Total 73 193 266
27.44 72.56 100.00
Frequency Missing = 14
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.7858 0.3754
Likelihood Ratio Chi-Square 1 0.7868 0.3751
Continuity Adj. Chi-Square 1 0.5610 0.4538
Mantel-Haenszel Chi-Square 1 0.7828 0.3763
Phi Coefficient -0.0544
Contingency Coefficient 0.0543
Cramer's V -0.0544
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 33
Left-sided Pr <= F 0.2270
Right-sided Pr >= F 0.8471
Table Probability (P) 0.0741
Two-sided Pr <= P 0.4111
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.7833 0.4563 1.3448
Cohort (Col1 Risk) 0.8375 0.5652 1.2410
Cohort (Col2 Risk) 1.0691 0.9221 1.2397
Effective Sample Size = 266
Frequency Missing = 14
European-American DVT 11:59 Tuesday, June 18, 2002 65
SNP = 432336
Table of case_cn by gfreq7
case_cn gfreq7
Frequency|
Percent |CC |CT |TT | Total
---------+--------+--------+--------+
Case | 4 | 25 | 37 | 66
| 3.01 | 18.80 | 27.82 | 49.62
---------+--------+--------+--------+
Control | 4 | 32 | 31 | 67
| 3.01 | 24.06 | 23.31 | 50.38
---------+--------+--------+--------+
Total 8 57 68 133
6.02 42.86 51.13 100.00
Frequency Missing = 7
Statistics for Table of case_cn by gfreq7
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 1.3816 0.5012
Likelihood Ratio Chi-Square 2 1.3844 0.5005
Mantel-Haenszel Chi-Square 1 0.8442 0.3582
Phi Coefficient 0.1019
Contingency Coefficient 0.1014
Cramer's V 0.1019
WARNING: 33% of the cells have expected counts less than 5.
(Asymptotic) Chi-Square may not be a valid test.
Pearson Chi-Square Test
----------------------------------
Chi-Square 1.3816
DF 2
Asymptotic Pr > ChiSq 0.5012
Exact Pr >= ChiSq 0.5184
Effective Sample Size = 133
Frequency Missing = 7
European-American DVT 11:59 Tuesday, June 18, 2002 66
SNP = NOD1.449861
Allele Frequency
Frequency|
Percent |A |G | Total
---------+--------+--------+
Case | 15 | 123 | 138
| 5.43 | 44.57 | 50.00
---------+--------+--------+
Control | 17 | 121 | 138
| 6.16 | 43.84 | 50.00
---------+--------+--------+
Total 32 244 276
11.59 88.41 100.00
Frequency Missing = 4
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.1414 0.7069
Likelihood Ratio Chi-Square 1 0.1415 0.7068
Continuity Adj. Chi-Square 1 0.0353 0.8509
Mantel-Haenszel Chi-Square 1 0.1409 0.7074
Phi Coefficient -0.0226
Contingency Coefficient 0.0226
Cramer's V -0.0226
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 15
Left-sided Pr <= F 0.4256
Right-sided Pr >= F 0.7133
Table Probability (P) 0.1389
Two-sided Pr <= P 0.8512
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.8680 0.4149 1.8161
Cohort (Col1 Risk) 0.8824 0.4593 1.6952
Cohort (Col2 Risk) 1.0165 0.9333 1.1072
Effective Sample Size = 276
Frequency Missing = 4
European-American DVT 11:59 Tuesday, June 18, 2002 67
SNP = NOD1.449861
Table of case_cn by gfreq8
case_cn gfreq8
Frequency|
Percent |AA |GA |GG | Total
---------+--------+--------+--------+
Case | 2 | 11 | 56 | 69
| 1.45 | 7.97 | 40.58 | 50.00
---------+--------+--------+--------+
Control | 0 | 17 | 52 | 69
| 0.00 | 12.32 | 37.68 | 50.00
---------+--------+--------+--------+
Total 2 28 108 138
1.45 20.29 78.26 100.00
Frequency Missing = 2
Statistics for Table of case_cn by gfreq8
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 3.4339 0.1796
Likelihood Ratio Chi-Square 2 4.2165 0.1214
Mantel-Haenszel Chi-Square 1 0.1389 0.7093
Phi Coefficient 0.1577
Contingency Coefficient 0.1558
Cramer's V 0.1577
WARNING: 33% of the cells have expected counts less than 5.
(Asymptotic) Chi-Square may not be a valid test.
Pearson Chi-Square Test
----------------------------------
Chi-Square 3.4339
DF 2
Asymptotic Pr > ChiSq 0.1796
Exact Pr >= ChiSq 0.1721
Effective Sample Size = 138
Frequency Missing = 2
African-American Asthma 11:59 Tuesday, June 18, 2002 68
SNP = 21291
Allele Frequency
Frequency|
Percent |A |G | Total
---------+--------+--------+
Case | 80 | 74 | 154
| 22.73 | 21.02 | 43.75
---------+--------+--------+
Control | 95 | 103 | 198
| 26.99 | 29.26 | 56.25
---------+--------+--------+
Total 175 177 352
49.72 50.28 100.00
Frequency Missing = 12
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.5457 0.4601
Likelihood Ratio Chi-Square 1 0.5458 0.4600
Continuity Adj. Chi-Square 1 0.3985 0.5279
Mantel-Haenszel Chi-Square 1 0.5441 0.4607
Phi Coefficient 0.0394
Contingency Coefficient 0.0393
Cramer's V 0.0394
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 80
Left-sided Pr <= F 0.8012
Right-sided Pr >= F 0.2640
Table Probability (P) 0.0652
Two-sided Pr <= P 0.5192
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.1721 0.7690 1.7866
Cohort (Col1 Risk) 1.0827 0.8776 1.3357
Cohort (Col2 Risk) 0.9237 0.7474 1.1416
Effective Sample Size = 352
Frequency Missing = 12
African-American Asthma 11:59 Tuesday, June 18, 2002 69
SNP = 21291
Allele Frequency
Frequency|
Percent |AA |GA |GG | Total
---------+--------+--------+--------+
Case | 24 | 32 | 21 | 77
| 13.64 | 18.18 | 11.93 | 43.75
---------+--------+--------+--------+
Control | 21 | 53 | 25 | 99
| 11.93 | 30.11 | 14.20 | 56.25
---------+--------+--------+--------+
Total 45 85 46 176
25.57 48.30 26.14 100.00
Frequency Missing = 6
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 3.0335 0.2194
Likelihood Ratio Chi-Square 2 3.0336 0.2194
Mantel-Haenszel Chi-Square 1 0.5247 0.4689
Phi Coefficient 0.1313
Contingency Coefficient 0.1302
Cramer's V 0.1313
Pearson Chi-Square Test
----------------------------------
Chi-Square 3.0335
DF 2
Asymptotic Pr > ChiSq 0.2194
Exact Pr >= ChiSq 0.2271
Effective Sample Size = 176
Frequency Missing = 6
African-American Asthma 11:59 Tuesday, June 18, 2002 70
SNP = 21415
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Case | 53 | 103 | 156
| 14.97 | 29.10 | 44.07
---------+--------+--------+
Control | 65 | 133 | 198
| 18.36 | 37.57 | 55.93
---------+--------+--------+
Total 118 236 354
33.33 66.67 100.00
Frequency Missing = 10
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.0516 0.8203
Likelihood Ratio Chi-Square 1 0.0515 0.8204
Continuity Adj. Chi-Square 1 0.0129 0.9096
Mantel-Haenszel Chi-Square 1 0.0514 0.8206
Phi Coefficient 0.0121
Contingency Coefficient 0.0121
Cramer's V 0.0121
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 53
Left-sided Pr <= F 0.6338
Right-sided Pr >= F 0.4542
Table Probability (P) 0.0880
Two-sided Pr <= P 0.8215
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.0529 0.6749 1.6425
Cohort (Col1 Risk) 1.0349 0.7698 1.3913
Cohort (Col2 Risk) 0.9829 0.8470 1.1407
Effective Sample Size = 354
Frequency Missing = 10
African-American Asthma 11:59 Tuesday, June 18, 2002 71
SNP = 21415
Allele Frequency
Frequency|
Percent |CC |CT |TT | Total
---------+--------+--------+--------+
Case | 12 | 29 | 37 | 78
| 6.78 | 16.38 | 20.90 | 44.07
---------+--------+--------+--------+
Control | 8 | 49 | 42 | 99
| 4.52 | 27.68 | 23.73 | 55.93
---------+--------+--------+--------+
Total 20 78 79 177
11.30 44.07 44.63 100.00
Frequency Missing = 5
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 3.8067 0.1491
Likelihood Ratio Chi-Square 2 3.8106 0.1488
Mantel-Haenszel Chi-Square 1 0.0509 0.8216
Phi Coefficient 0.1467
Contingency Coefficient 0.1451
Cramer's V 0.1467
Pearson Chi-Square Test
----------------------------------
Chi-Square 3.8067
DF 2
Asymptotic Pr > ChiSq 0.1491
Exact Pr >= ChiSq 0.1541
Effective Sample Size = 177
Frequency Missing = 5
African-American Asthma 11:59 Tuesday, June 18, 2002 72
SNP = 2733
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Case | 87 | 65 | 152
| 25.00 | 18.68 | 43.68
---------+--------+--------+
Control | 115 | 81 | 196
| 33.05 | 23.28 | 56.32
---------+--------+--------+
Total 202 146 348
58.05 41.95 100.00
Frequency Missing = 16
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.0726 0.7877
Likelihood Ratio Chi-Square 1 0.0725 0.7877
Continuity Adj. Chi-Square 1 0.0256 0.8730
Mantel-Haenszel Chi-Square 1 0.0723 0.7880
Phi Coefficient -0.0144
Contingency Coefficient 0.0144
Cramer's V -0.0144
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 87
Left-sided Pr <= F 0.4362
Right-sided Pr >= F 0.6478
Table Probability (P) 0.0840
Two-sided Pr <= P 0.8270
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-------- | 