Innate Immunity in Heart, Lung and Blood Disease
Programs for Genomic Applications
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European-American Asthma 16:43 Wednesday, September 18, 2002 37
SNP = LBP17231_20294_17152
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |A |G | Total
---------+--------+--------+
Control | 601 | 539 | 1140
| 28.16 | 25.26 | 53.42
---------+--------+--------+
Case | 517 | 477 | 994
| 24.23 | 22.35 | 46.58
---------+--------+--------+
Total 1118 1016 2134
52.39 47.61 100.00
Frequency Missing = 96
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.1065 0.7442
Likelihood Ratio Chi-Square 1 0.1065 0.7442
Continuity Adj. Chi-Square 1 0.0800 0.7773
Mantel-Haenszel Chi-Square 1 0.1064 0.7442
Phi Coefficient 0.0071
Contingency Coefficient 0.0071
Cramer's V 0.0071
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 601
Left-sided Pr <= F 0.6442
Right-sided Pr >= F 0.3886
Table Probability (P) 0.0329
Two-sided Pr <= P 0.7611
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.0288 0.8677 1.2198
Cohort (Col1 Risk) 1.0136 0.9346 1.0993
Cohort (Col2 Risk) 0.9853 0.9012 1.0771
Effective Sample Size = 2134
Frequency Missing = 96
European-American Asthma 16:43 Wednesday, September 18, 2002 38
SNP = LBP17231_20294_17152
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |AA |GA |GG | Total
---------+--------+--------+--------+
Control | 157 | 287 | 126 | 570
| 14.71 | 26.90 | 11.81 | 53.42
---------+--------+--------+--------+
Case | 136 | 245 | 116 | 497
| 12.75 | 22.96 | 10.87 | 46.58
---------+--------+--------+--------+
Total 293 532 242 1067
27.46 49.86 22.68 100.00
Frequency Missing = 48
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 0.2409 0.8865
Likelihood Ratio Chi-Square 2 0.2407 0.8866
Mantel-Haenszel Chi-Square 1 0.1063 0.7444
Phi Coefficient 0.0150
Contingency Coefficient 0.0150
Cramer's V 0.0150
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.2409
DF 2
Asymptotic Pr > ChiSq 0.8865
Exact Pr >= ChiSq 0.8880
Effective Sample Size = 1067
Frequency Missing = 48
European-American Asthma 16:43 Wednesday, September 18, 2002 39
SNP = LBP_1605
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |A |T | Total
---------+--------+--------+
Control | 950 | 146 | 1096
| 45.98 | 7.07 | 53.05
---------+--------+--------+
Case | 858 | 112 | 970
| 41.53 | 5.42 | 46.95
---------+--------+--------+
Total 1808 258 2066
87.51 12.49 100.00
Frequency Missing = 164
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 1.4831 0.2233
Likelihood Ratio Chi-Square 1 1.4879 0.2225
Continuity Adj. Chi-Square 1 1.3252 0.2497
Mantel-Haenszel Chi-Square 1 1.4824 0.2234
Phi Coefficient -0.0268
Contingency Coefficient 0.0268
Cramer's V -0.0268
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 950
Left-sided Pr <= F 0.1247
Right-sided Pr >= F 0.9007
Table Probability (P) 0.0254
Two-sided Pr <= P 0.2306
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.8494 0.6530 1.1048
Cohort (Col1 Risk) 0.9799 0.9486 1.0123
Cohort (Col2 Risk) 1.1537 0.9162 1.4528
Effective Sample Size = 2066
Frequency Missing = 164
European-American Asthma 16:43 Wednesday, September 18, 2002 40
SNP = LBP_1605
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |AA |TA |TT | Total
---------+--------+--------+--------+
Control | 416 | 118 | 14 | 548
| 40.27 | 11.42 | 1.36 | 53.05
---------+--------+--------+--------+
Case | 382 | 94 | 9 | 485
| 36.98 | 9.10 | 0.87 | 46.95
---------+--------+--------+--------+
Total 798 212 23 1033
77.25 20.52 2.23 100.00
Frequency Missing = 82
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 1.4156 0.4927
Likelihood Ratio Chi-Square 2 1.4230 0.4909
Mantel-Haenszel Chi-Square 1 1.3965 0.2373
Phi Coefficient 0.0370
Contingency Coefficient 0.0370
Cramer's V 0.0370
Pearson Chi-Square Test
----------------------------------
Chi-Square 1.4156
DF 2
Asymptotic Pr > ChiSq 0.4927
Exact Pr >= ChiSq 0.5063
Effective Sample Size = 1033
Frequency Missing = 82
European-American Asthma 16:43 Wednesday, September 18, 2002 41
SNP = LBP_17119
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Control | 713 | 417 | 1130
| 33.70 | 19.71 | 53.40
---------+--------+--------+
Case | 607 | 379 | 986
| 28.69 | 17.91 | 46.60
---------+--------+--------+
Total 1320 796 2116
62.38 37.62 100.00
Frequency Missing = 114
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.5290 0.4670
Likelihood Ratio Chi-Square 1 0.5289 0.4671
Continuity Adj. Chi-Square 1 0.4656 0.4950
Mantel-Haenszel Chi-Square 1 0.5288 0.4671
Phi Coefficient 0.0158
Contingency Coefficient 0.0158
Cramer's V 0.0158
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 713
Left-sided Pr <= F 0.7801
Right-sided Pr >= F 0.2475
Table Probability (P) 0.0275
Two-sided Pr <= P 0.4720
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.0676 0.8951 1.2734
Cohort (Col1 Risk) 1.0249 0.9590 1.0954
Cohort (Col2 Risk) 0.9601 0.8602 1.0715
Effective Sample Size = 2116
Frequency Missing = 114
European-American Asthma 16:43 Wednesday, September 18, 2002 42
SNP = LBP_17119
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |CC |CT |TT | Total
---------+--------+--------+--------+
Control | 233 | 247 | 85 | 565
| 22.02 | 23.35 | 8.03 | 53.40
---------+--------+--------+--------+
Case | 194 | 219 | 80 | 493
| 18.34 | 20.70 | 7.56 | 46.60
---------+--------+--------+--------+
Total 427 466 165 1058
40.36 44.05 15.60 100.00
Frequency Missing = 57
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 0.4985 0.7794
Likelihood Ratio Chi-Square 2 0.4984 0.7794
Mantel-Haenszel Chi-Square 1 0.4979 0.4804
Phi Coefficient 0.0217
Contingency Coefficient 0.0217
Cramer's V 0.0217
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.4985
DF 2
Asymptotic Pr > ChiSq 0.7794
Exact Pr >= ChiSq 0.7817
Effective Sample Size = 1058
Frequency Missing = 57
European-American Asthma 16:43 Wednesday, September 18, 2002 43
SNP = LBP_23297_25627
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Control | 532 | 572 | 1104
| 25.73 | 27.66 | 53.38
---------+--------+--------+
Case | 467 | 497 | 964
| 22.58 | 24.03 | 46.62
---------+--------+--------+
Total 999 1069 2068
48.31 51.69 100.00
Frequency Missing = 162
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.0135 0.9076
Likelihood Ratio Chi-Square 1 0.0135 0.9076
Continuity Adj. Chi-Square 1 0.0052 0.9427
Mantel-Haenszel Chi-Square 1 0.0135 0.9077
Phi Coefficient -0.0026
Contingency Coefficient 0.0026
Cramer's V -0.0026
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 532
Left-sided Pr <= F 0.4713
Right-sided Pr >= F 0.5636
Table Probability (P) 0.0349
Two-sided Pr <= P 0.9297
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.9898 0.8327 1.1766
Cohort (Col1 Risk) 0.9947 0.9097 1.0877
Cohort (Col2 Risk) 1.0050 0.9244 1.0925
Effective Sample Size = 2068
Frequency Missing = 162
European-American Asthma 16:43 Wednesday, September 18, 2002 44
SNP = LBP_23297_25627
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |CC |CT |TT | Total
---------+--------+--------+--------+
Control | 130 | 272 | 150 | 552
| 12.57 | 26.31 | 14.51 | 53.38
---------+--------+--------+--------+
Case | 110 | 247 | 125 | 482
| 10.64 | 23.89 | 12.09 | 46.62
---------+--------+--------+--------+
Total 240 519 275 1034
23.21 50.19 26.60 100.00
Frequency Missing = 81
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 0.4066 0.8160
Likelihood Ratio Chi-Square 2 0.4067 0.8160
Mantel-Haenszel Chi-Square 1 0.0135 0.9074
Phi Coefficient 0.0198
Contingency Coefficient 0.0198
Cramer's V 0.0198
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.4066
DF 2
Asymptotic Pr > ChiSq 0.8160
Exact Pr >= ChiSq 0.8131
Effective Sample Size = 1034
Frequency Missing = 81
European-American Asthma 16:43 Wednesday, September 18, 2002 45
SNP = LBP_25627
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Control | 583 | 519 | 1102
| 28.36 | 25.24 | 53.60
---------+--------+--------+
Case | 506 | 448 | 954
| 24.61 | 21.79 | 46.40
---------+--------+--------+
Total 1089 967 2056
52.97 47.03 100.00
Frequency Missing = 174
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.0038 0.9509
Likelihood Ratio Chi-Square 1 0.0038 0.9509
Continuity Adj. Chi-Square 1 0.0003 0.9862
Mantel-Haenszel Chi-Square 1 0.0038 0.9509
Phi Coefficient -0.0014
Contingency Coefficient 0.0014
Cramer's V -0.0014
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 583
Left-sided Pr <= F 0.4931
Right-sided Pr >= F 0.5422
Table Probability (P) 0.0353
Two-sided Pr <= P 0.9647
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.9946 0.8360 1.1832
Cohort (Col1 Risk) 0.9974 0.9192 1.0823
Cohort (Col2 Risk) 1.0029 0.9147 1.0995
Effective Sample Size = 2056
Frequency Missing = 174
European-American Asthma 16:43 Wednesday, September 18, 2002 46
SNP = LBP_25627
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |CC |CT |TT | Total
---------+--------+--------+--------+
Control | 160 | 263 | 128 | 551
| 15.56 | 25.58 | 12.45 | 53.60
---------+--------+--------+--------+
Case | 142 | 222 | 113 | 477
| 13.81 | 21.60 | 10.99 | 46.40
---------+--------+--------+--------+
Total 302 485 241 1028
29.38 47.18 23.44 100.00
Frequency Missing = 87
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 0.1463 0.9294
Likelihood Ratio Chi-Square 2 0.1464 0.9294
Mantel-Haenszel Chi-Square 1 0.0036 0.9521
Phi Coefficient 0.0119
Contingency Coefficient 0.0119
Cramer's V 0.0119
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.1463
DF 2
Asymptotic Pr > ChiSq 0.9294
Exact Pr >= ChiSq 0.9302
Effective Sample Size = 1028
Frequency Missing = 87