Innate Immunity in Heart, Lung and Blood Disease
Programs for Genomic Applications
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European-American Asthma 14:10 Wednesday, October 22, 2003 46
SNP = IIPGA_IRAK1_11514
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Control | 139 | 855 | 994
| 7.03 | 43.27 | 50.30
---------+--------+--------+
Case | 134 | 848 | 982
| 6.78 | 42.91 | 49.70
---------+--------+--------+
Total 273 1703 1976
13.82 86.18 100.00
Frequency Missing = 84
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.0475 0.8275
Likelihood Ratio Chi-Square 1 0.0475 0.8275
Continuity Adj. Chi-Square 1 0.0233 0.8786
Mantel-Haenszel Chi-Square 1 0.0475 0.8276
Phi Coefficient 0.0049
Contingency Coefficient 0.0049
Cramer's V 0.0049
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 139
Left-sided Pr <= F 0.6114
Right-sided Pr >= F 0.4394
Table Probability (P) 0.0508
Two-sided Pr <= P 0.8451
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.0288 0.7968 1.3284
Cohort (Col1 Risk) 1.0248 0.8222 1.2773
Cohort (Col2 Risk) 0.9961 0.9615 1.0319
Effective Sample Size = 1976
Frequency Missing = 84
European-American Asthma 14:10 Wednesday, October 22, 2003 47
SNP = IIPGA_IRAK1_11514
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |CC |CT |TT | Total
---------+--------+--------+--------+
Control | 11 | 117 | 369 | 497
| 1.11 | 11.84 | 37.35 | 50.30
---------+--------+--------+--------+
Case | 7 | 120 | 364 | 491
| 0.71 | 12.15 | 36.84 | 49.70
---------+--------+--------+--------+
Total 18 237 733 988
1.82 23.99 74.19 100.00
Frequency Missing = 42
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 0.9246 0.6298
Likelihood Ratio Chi-Square 2 0.9320 0.6275
Mantel-Haenszel Chi-Square 1 0.0478 0.8270
Phi Coefficient 0.0306
Contingency Coefficient 0.0306
Cramer's V 0.0306
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.9246
DF 2
Asymptotic Pr > ChiSq 0.6298
Exact Pr >= ChiSq 0.6551
Effective Sample Size = 988
Frequency Missing = 42
European-American Asthma 14:10 Wednesday, October 22, 2003 48
SNP = IIPGA_IRAK1_5860
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Control | 106 | 692 | 798
| 6.96 | 45.41 | 52.36
---------+--------+--------+
Case | 77 | 649 | 726
| 5.05 | 42.59 | 47.64
---------+--------+--------+
Total 183 1341 1524
12.01 87.99 100.00
Frequency Missing = 536
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 2.5786 0.1083
Likelihood Ratio Chi-Square 1 2.5913 0.1075
Continuity Adj. Chi-Square 1 2.3315 0.1268
Mantel-Haenszel Chi-Square 1 2.5769 0.1084
Phi Coefficient 0.0411
Contingency Coefficient 0.0411
Cramer's V 0.0411
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 106
Left-sided Pr <= F 0.9543
Right-sided Pr >= F 0.0631
Table Probability (P) 0.0174
Two-sided Pr <= P 0.1149
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.2911 0.9447 1.7645
Cohort (Col1 Risk) 1.2524 0.9506 1.6500
Cohort (Col2 Risk) 0.9701 0.9349 1.0066
Effective Sample Size = 1524
Frequency Missing = 536
WARNING: 26% of the data are missing.
European-American Asthma 14:10 Wednesday, October 22, 2003 49
SNP = IIPGA_IRAK1_5860
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |CC |CT |TT | Total
---------+--------+--------+--------+
Control | 15 | 76 | 308 | 399
| 1.97 | 9.97 | 40.42 | 52.36
---------+--------+--------+--------+
Case | 8 | 61 | 294 | 363
| 1.05 | 8.01 | 38.58 | 47.64
---------+--------+--------+--------+
Total 23 137 602 762
3.02 17.98 79.00 100.00
Frequency Missing = 268
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 2.4029 0.3008
Likelihood Ratio Chi-Square 2 2.4344 0.2961
Mantel-Haenszel Chi-Square 1 2.2409 0.1344
Phi Coefficient 0.0562
Contingency Coefficient 0.0561
Cramer's V 0.0562
Pearson Chi-Square Test
----------------------------------
Chi-Square 2.4029
DF 2
Asymptotic Pr > ChiSq 0.3008
Exact Pr >= ChiSq 0.3095
Effective Sample Size = 762
Frequency Missing = 268
WARNING: 26% of the data are missing.
European-American Asthma 14:10 Wednesday, October 22, 2003 50
SNP = IIPGA_IRAK1_6151
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Control | 860 | 122 | 982
| 44.24 | 6.28 | 50.51
---------+--------+--------+
Case | 836 | 126 | 962
| 43.00 | 6.48 | 49.49
---------+--------+--------+
Total 1696 248 1944
87.24 12.76 100.00
Frequency Missing = 116
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.1984 0.6560
Likelihood Ratio Chi-Square 1 0.1984 0.6560
Continuity Adj. Chi-Square 1 0.1425 0.7059
Mantel-Haenszel Chi-Square 1 0.1983 0.6561
Phi Coefficient 0.0101
Contingency Coefficient 0.0101
Cramer's V 0.0101
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 860
Left-sided Pr <= F 0.6962
Right-sided Pr >= F 0.3529
Table Probability (P) 0.0491
Two-sided Pr <= P 0.6835
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.0624 0.8139 1.3869
Cohort (Col1 Risk) 1.0078 0.9741 1.0426
Cohort (Col2 Risk) 0.9485 0.7517 1.1968
Effective Sample Size = 1944
Frequency Missing = 116
European-American Asthma 14:10 Wednesday, October 22, 2003 51
SNP = IIPGA_IRAK1_6151
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |CC |CT |TT | Total
---------+--------+--------+--------+
Control | 379 | 102 | 10 | 491
| 38.99 | 10.49 | 1.03 | 50.51
---------+--------+--------+--------+
Case | 367 | 102 | 12 | 481
| 37.76 | 10.49 | 1.23 | 49.49
---------+--------+--------+--------+
Total 746 204 22 972
76.75 20.99 2.26 100.00
Frequency Missing = 58
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 0.2720 0.8728
Likelihood Ratio Chi-Square 2 0.2722 0.8727
Mantel-Haenszel Chi-Square 1 0.1875 0.6650
Phi Coefficient 0.0167
Contingency Coefficient 0.0167
Cramer's V 0.0167
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.2720
DF 2
Asymptotic Pr > ChiSq 0.8728
Exact Pr >= ChiSq 0.8608
Effective Sample Size = 972
Frequency Missing = 58