Innate Immunity in Heart, Lung and Blood Disease
Programs for Genomic Applications
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European-American Asthma 11:50 Wednesday, February 4, 2004 137
SNP = IRAK2_17875
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Control | 181 | 745 | 926
| 9.73 | 40.05 | 49.78
---------+--------+--------+
Case | 178 | 756 | 934
| 9.57 | 40.65 | 50.22
---------+--------+--------+
Total 359 1501 1860
19.30 80.70 100.00
Frequency Missing = 200
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.0713 0.7895
Likelihood Ratio Chi-Square 1 0.0713 0.7895
Continuity Adj. Chi-Square 1 0.0434 0.8351
Mantel-Haenszel Chi-Square 1 0.0712 0.7895
Phi Coefficient 0.0062
Contingency Coefficient 0.0062
Cramer's V 0.0062
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 181
Left-sided Pr <= F 0.6277
Right-sided Pr >= F 0.4175
Table Probability (P) 0.0452
Two-sided Pr <= P 0.8143
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.0319 0.8196 1.2991
Cohort (Col1 Risk) 1.0256 0.8517 1.2351
Cohort (Col2 Risk) 0.9940 0.9507 1.0391
Effective Sample Size = 1860
Frequency Missing = 200
European-American Asthma 11:50 Wednesday, February 4, 2004 138
SNP = IRAK2_17875
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |2 |4 | Total
---------+--------+--------+
Control | 160 | 303 | 463
| 17.20 | 32.58 | 49.78
---------+--------+--------+
Case | 168 | 299 | 467
| 18.06 | 32.15 | 50.22
---------+--------+--------+
Total 328 602 930
35.27 64.73 100.00
Frequency Missing = 100
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.2045 0.6511
Likelihood Ratio Chi-Square 1 0.2045 0.6511
Continuity Adj. Chi-Square 1 0.1471 0.7013
Mantel-Haenszel Chi-Square 1 0.2043 0.6513
Phi Coefficient -0.0148
Contingency Coefficient 0.0148
Cramer's V -0.0148
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.2045
DF 1
Asymptotic Pr > ChiSq 0.6511
Exact Pr >= ChiSq 0.6807
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 160
Left-sided Pr <= F 0.3507
Right-sided Pr >= F 0.6987
Table Probability (P) 0.0494
Two-sided Pr <= P 0.6807
European-American Asthma 11:50 Wednesday, February 4, 2004 139
SNP = IRAK2_17875
The FREQ Procedure
Statistics for Table of Allele Frequency
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.9398 0.7181 1.2300
Cohort (Col1 Risk) 0.9606 0.8070 1.1434
Cohort (Col2 Risk) 1.0221 0.9296 1.1239
Odds Ratio (Case-Control Study)
-----------------------------------
Odds Ratio 0.9398
Asymptotic Conf Limits
95% Lower Conf Limit 0.7181
95% Upper Conf Limit 1.2300
Exact Conf Limits
95% Lower Conf Limit 0.7115
95% Upper Conf Limit 1.2412
Effective Sample Size = 930
Frequency Missing = 100
European-American Asthma 11:50 Wednesday, February 4, 2004 140
SNP = IRAK2_40606
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |A |G | Total
---------+--------+--------+
Control | 506 | 460 | 966
| 26.66 | 24.24 | 50.90
---------+--------+--------+
Case | 490 | 442 | 932
| 25.82 | 23.29 | 49.10
---------+--------+--------+
Total 996 902 1898
52.48 47.52 100.00
Frequency Missing = 162
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.0072 0.9325
Likelihood Ratio Chi-Square 1 0.0072 0.9325
Continuity Adj. Chi-Square 1 0.0015 0.9691
Mantel-Haenszel Chi-Square 1 0.0072 0.9325
Phi Coefficient -0.0019
Contingency Coefficient 0.0019
Cramer's V -0.0019
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 506
Left-sided Pr <= F 0.4846
Right-sided Pr >= F 0.5520
Table Probability (P) 0.0365
Two-sided Pr <= P 0.9633
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.9922 0.8286 1.1882
Cohort (Col1 Risk) 0.9963 0.9145 1.0854
Cohort (Col2 Risk) 1.0041 0.9135 1.1037
Effective Sample Size = 1898
Frequency Missing = 162
European-American Asthma 11:50 Wednesday, February 4, 2004 141
SNP = IRAK2_40606
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |1 |3 | Total
---------+--------+--------+
Control | 370 | 113 | 483
| 38.99 | 11.91 | 50.90
---------+--------+--------+
Case | 370 | 96 | 466
| 38.99 | 10.12 | 49.10
---------+--------+--------+
Total 740 209 949
77.98 22.02 100.00
Frequency Missing = 81
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 1.0786 0.2990
Likelihood Ratio Chi-Square 1 1.0798 0.2988
Continuity Adj. Chi-Square 1 0.9220 0.3370
Mantel-Haenszel Chi-Square 1 1.0775 0.2993
Phi Coefficient -0.0337
Contingency Coefficient 0.0337
Cramer's V -0.0337
Pearson Chi-Square Test
----------------------------------
Chi-Square 1.0786
DF 1
Asymptotic Pr > ChiSq 0.2990
Exact Pr >= ChiSq 0.3093
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 370
Left-sided Pr <= F 0.1685
Right-sided Pr >= F 0.8680
Table Probability (P) 0.0365
Two-sided Pr <= P 0.3093
European-American Asthma 11:50 Wednesday, February 4, 2004 142
SNP = IRAK2_40606
The FREQ Procedure
Statistics for Table of Allele Frequency
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.8496 0.6244 1.1558
Cohort (Col1 Risk) 0.9648 0.9018 1.0323
Cohort (Col2 Risk) 1.1357 0.8929 1.4443
Odds Ratio (Case-Control Study)
-----------------------------------
Odds Ratio 0.8496
Asymptotic Conf Limits
95% Lower Conf Limit 0.6244
95% Upper Conf Limit 1.1558
Exact Conf Limits
95% Lower Conf Limit 0.6166
95% Upper Conf Limit 1.1693
Effective Sample Size = 949
Frequency Missing = 81
European-American Asthma 11:50 Wednesday, February 4, 2004 143
SNP = IRAK2_5352
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |C |G | Total
---------+--------+--------+
Control | 223 | 435 | 658
| 15.55 | 30.33 | 45.89
---------+--------+--------+
Case | 263 | 513 | 776
| 18.34 | 35.77 | 54.11
---------+--------+--------+
Total 486 948 1434
33.89 66.11 100.00
Frequency Missing = 626
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.0000 0.9996
Likelihood Ratio Chi-Square 1 0.0000 0.9996
Continuity Adj. Chi-Square 1 0.0000 1.0000
Mantel-Haenszel Chi-Square 1 0.0000 0.9996
Phi Coefficient -0.0000
Contingency Coefficient 0.0000
Cramer's V -0.0000
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 223
Left-sided Pr <= F 0.5223
Right-sided Pr >= F 0.5223
Table Probability (P) 0.0446
Two-sided Pr <= P 1.0000
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.9999 0.8029 1.2453
Cohort (Col1 Risk) 1.0000 0.8649 1.1561
Cohort (Col2 Risk) 1.0000 0.9283 1.0772
Effective Sample Size = 1434
Frequency Missing = 626
WARNING: 30% of the data are missing.
European-American Asthma 11:50 Wednesday, February 4, 2004 144
SNP = IRAK2_5352
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |2 |3 | Total
---------+--------+--------+
Control | 185 | 144 | 329
| 25.80 | 20.08 | 45.89
---------+--------+--------+
Case | 224 | 164 | 388
| 31.24 | 22.87 | 54.11
---------+--------+--------+
Total 409 308 717
57.04 42.96 100.00
Frequency Missing = 313
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.1637 0.6858
Likelihood Ratio Chi-Square 1 0.1637 0.6858
Continuity Adj. Chi-Square 1 0.1082 0.7422
Mantel-Haenszel Chi-Square 1 0.1635 0.6860
Phi Coefficient -0.0151
Contingency Coefficient 0.0151
Cramer's V -0.0151
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.1637
DF 1
Asymptotic Pr > ChiSq 0.6858
Exact Pr >= ChiSq 0.7054
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 185
Left-sided Pr <= F 0.3710
Right-sided Pr >= F 0.6845
Table Probability (P) 0.0556
Two-sided Pr <= P 0.7054
European-American Asthma 11:50 Wednesday, February 4, 2004 145
SNP = IRAK2_5352
The FREQ Procedure
Statistics for Table of Allele Frequency
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.9406 0.6991 1.2655
Cohort (Col1 Risk) 0.9740 0.8571 1.1068
Cohort (Col2 Risk) 1.0355 0.8746 1.2260
Odds Ratio (Case-Control Study)
-----------------------------------
Odds Ratio 0.9406
Asymptotic Conf Limits
95% Lower Conf Limit 0.6991
95% Upper Conf Limit 1.2655
Exact Conf Limits
95% Lower Conf Limit 0.6915
95% Upper Conf Limit 1.2797
Effective Sample Size = 717
Frequency Missing = 313
WARNING: 30% of the data are missing.
European-American Asthma 11:50 Wednesday, February 4, 2004 146
SNP = IRAK2_62841
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |C |G | Total
---------+--------+--------+
Control | 506 | 372 | 878
| 28.14 | 20.69 | 48.83
---------+--------+--------+
Case | 534 | 386 | 920
| 29.70 | 21.47 | 51.17
---------+--------+--------+
Total 1040 758 1798
57.84 42.16 100.00
Frequency Missing = 262
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.0313 0.8595
Likelihood Ratio Chi-Square 1 0.0313 0.8595
Continuity Adj. Chi-Square 1 0.0167 0.8971
Mantel-Haenszel Chi-Square 1 0.0313 0.8595
Phi Coefficient -0.0042
Contingency Coefficient 0.0042
Cramer's V -0.0042
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 506
Left-sided Pr <= F 0.4485
Right-sided Pr >= F 0.5890
Table Probability (P) 0.0375
Two-sided Pr <= P 0.8861
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.9832 0.8153 1.1857
Cohort (Col1 Risk) 0.9929 0.9175 1.0745
Cohort (Col2 Risk) 1.0098 0.9062 1.1253
Effective Sample Size = 1798
Frequency Missing = 262
WARNING: 13% of the data are missing.
European-American Asthma 11:50 Wednesday, February 4, 2004 147
SNP = IRAK2_62841
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |2 |3 | Total
---------+--------+--------+
Control | 149 | 290 | 439
| 16.57 | 32.26 | 48.83
---------+--------+--------+
Case | 144 | 316 | 460
| 16.02 | 35.15 | 51.17
---------+--------+--------+
Total 293 606 899
32.59 67.41 100.00
Frequency Missing = 131
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.7107 0.3992
Likelihood Ratio Chi-Square 1 0.7106 0.3992
Continuity Adj. Chi-Square 1 0.5957 0.4402
Mantel-Haenszel Chi-Square 1 0.7099 0.3995
Phi Coefficient 0.0281
Contingency Coefficient 0.0281
Cramer's V 0.0281
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.7107
DF 1
Asymptotic Pr > ChiSq 0.3992
Exact Pr >= ChiSq 0.4337
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 149
Left-sided Pr <= F 0.8197
Right-sided Pr >= F 0.2201
Table Probability (P) 0.0398
Two-sided Pr <= P 0.4337
European-American Asthma 11:50 Wednesday, February 4, 2004 148
SNP = IRAK2_62841
The FREQ Procedure
Statistics for Table of Allele Frequency
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.1275 0.8530 1.4904
Cohort (Col1 Risk) 1.0842 0.8984 1.3085
Cohort (Col2 Risk) 0.9616 0.8779 1.0534
Odds Ratio (Case-Control Study)
-----------------------------------
Odds Ratio 1.1275
Asymptotic Conf Limits
95% Lower Conf Limit 0.8530
95% Upper Conf Limit 1.4904
Exact Conf Limits
95% Lower Conf Limit 0.8446
95% Upper Conf Limit 1.5052
Effective Sample Size = 899
Frequency Missing = 131
WARNING: 13% of the data are missing.