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 10
SNP = IIPGA_ADAM19_68907
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |A |G | Total
---------+--------+--------+
Control | 639 | 337 | 976
| 32.74 | 17.26 | 50.00
---------+--------+--------+
Case | 640 | 336 | 976
| 32.79 | 17.21 | 50.00
---------+--------+--------+
Total 1279 673 1952
65.52 34.48 100.00
Frequency Missing = 120
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.0023 0.9620
Likelihood Ratio Chi-Square 1 0.0023 0.9620
Continuity Adj. Chi-Square 1 0.0000 1.0000
Mantel-Haenszel Chi-Square 1 0.0023 0.9620
Phi Coefficient -0.0011
Contingency Coefficient 0.0011
Cramer's V -0.0011
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 639
Left-sided Pr <= F 0.5000
Right-sided Pr >= F 0.5379
Table Probability (P) 0.0379
Two-sided Pr <= P 1.0000
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.9955 0.8260 1.1998
Cohort (Col1 Risk) 0.9984 0.9362 1.0648
Cohort (Col2 Risk) 1.0030 0.8875 1.1335
Effective Sample Size = 1952
Frequency Missing = 120
European-American Asthma 14:10 Wednesday, October 22, 2003 11
SNP = IIPGA_ADAM19_68907
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |AA |GA |GG | Total
---------+--------+--------+--------+
Control | 215 | 209 | 64 | 488
| 22.03 | 21.41 | 6.56 | 50.00
---------+--------+--------+--------+
Case | 215 | 210 | 63 | 488
| 22.03 | 21.52 | 6.45 | 50.00
---------+--------+--------+--------+
Total 430 419 127 976
44.06 42.93 13.01 100.00
Frequency Missing = 60
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 0.0103 0.9949
Likelihood Ratio Chi-Square 2 0.0103 0.9949
Mantel-Haenszel Chi-Square 1 0.0022 0.9629
Phi Coefficient 0.0032
Contingency Coefficient 0.0032
Cramer's V 0.0032
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.0103
DF 2
Asymptotic Pr > ChiSq 0.9949
Exact Pr >= ChiSq 1.0000
Effective Sample Size = 976
Frequency Missing = 60
European-American Asthma 14:10 Wednesday, October 22, 2003 12
SNP = IIPGA_ADAM19_86421
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |A |G | Total
---------+--------+--------+
Control | 120 | 780 | 900
| 6.62 | 43.00 | 49.61
---------+--------+--------+
Case | 119 | 795 | 914
| 6.56 | 43.83 | 50.39
---------+--------+--------+
Total 239 1575 1814
13.18 86.82 100.00
Frequency Missing = 258
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.0390 0.8435
Likelihood Ratio Chi-Square 1 0.0390 0.8435
Continuity Adj. Chi-Square 1 0.0164 0.8981
Mantel-Haenszel Chi-Square 1 0.0390 0.8435
Phi Coefficient 0.0046
Contingency Coefficient 0.0046
Cramer's V 0.0046
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 120
Left-sided Pr <= F 0.6052
Right-sided Pr >= F 0.4490
Table Probability (P) 0.0543
Two-sided Pr <= P 0.8896
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.0278 0.7829 1.3492
Cohort (Col1 Risk) 1.0241 0.8086 1.2970
Cohort (Col2 Risk) 0.9964 0.9613 1.0328
Effective Sample Size = 1814
Frequency Missing = 258
WARNING: 12% of the data are missing.
European-American Asthma 14:10 Wednesday, October 22, 2003 13
SNP = IIPGA_ADAM19_86421
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |AA |GA |GG | Total
---------+--------+--------+--------+
Control | 7 | 106 | 337 | 450
| 0.77 | 11.69 | 37.16 | 49.61
---------+--------+--------+--------+
Case | 4 | 111 | 342 | 457
| 0.44 | 12.24 | 37.71 | 50.39
---------+--------+--------+--------+
Total 11 217 679 907
1.21 23.93 74.86 100.00
Frequency Missing = 129
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 0.9162 0.6325
Likelihood Ratio Chi-Square 2 0.9267 0.6292
Mantel-Haenszel Chi-Square 1 0.0408 0.8399
Phi Coefficient 0.0318
Contingency Coefficient 0.0318
Cramer's V 0.0318
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.9162
DF 2
Asymptotic Pr > ChiSq 0.6325
Exact Pr >= ChiSq 0.6354
Effective Sample Size = 907
Frequency Missing = 129
WARNING: 12% of the data are missing.
European-American Asthma 14:10 Wednesday, October 22, 2003 14
SNP = IIPGA_ADAM19_87931
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |G |T | Total
---------+--------+--------+
Control | 180 | 780 | 960
| 9.30 | 40.29 | 49.59
---------+--------+--------+
Case | 179 | 797 | 976
| 9.25 | 41.17 | 50.41
---------+--------+--------+
Total 359 1577 1936
18.54 81.46 100.00
Frequency Missing = 136
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.0538 0.8165
Likelihood Ratio Chi-Square 1 0.0538 0.8166
Continuity Adj. Chi-Square 1 0.0301 0.8623
Mantel-Haenszel Chi-Square 1 0.0538 0.8166
Phi Coefficient 0.0053
Contingency Coefficient 0.0053
Cramer's V 0.0053
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 180
Left-sided Pr <= F 0.6143
Right-sided Pr >= F 0.4311
Table Probability (P) 0.0454
Two-sided Pr <= P 0.8608
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.0275 0.8170 1.2922
Cohort (Col1 Risk) 1.0223 0.8482 1.2322
Cohort (Col2 Risk) 0.9950 0.9536 1.0382
Effective Sample Size = 1936
Frequency Missing = 136
European-American Asthma 14:10 Wednesday, October 22, 2003 15
SNP = IIPGA_ADAM19_87931
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |GG |GT |TT | Total
---------+--------+--------+--------+
Control | 13 | 154 | 313 | 480
| 1.34 | 15.91 | 32.33 | 49.59
---------+--------+--------+--------+
Case | 10 | 159 | 319 | 488
| 1.03 | 16.43 | 32.95 | 50.41
---------+--------+--------+--------+
Total 23 313 632 968
2.38 32.33 65.29 100.00
Frequency Missing = 68
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 2 0.4621 0.7937
Likelihood Ratio Chi-Square 2 0.4631 0.7933
Mantel-Haenszel Chi-Square 1 0.0578 0.8100
Phi Coefficient 0.0218
Contingency Coefficient 0.0218
Cramer's V 0.0218
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.4621
DF 2
Asymptotic Pr > ChiSq 0.7937
Exact Pr >= ChiSq 0.7955
Effective Sample Size = 968
Frequency Missing = 68
European-American Asthma 14:10 Wednesday, October 22, 2003 16
SNP = IIPGA_ADAM19_89956
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |C |G | Total
---------+--------+--------+
Control | 997 | 9 | 1006
| 49.90 | 0.45 | 50.35
---------+--------+--------+
Case | 989 | 3 | 992
| 49.50 | 0.15 | 49.65
---------+--------+--------+
Total 1986 12 1998
99.40 0.60 100.00
Frequency Missing = 74
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 2.9343 0.0867
Likelihood Ratio Chi-Square 1 3.0736 0.0796
Continuity Adj. Chi-Square 1 2.0261 0.1546
Mantel-Haenszel Chi-Square 1 2.9328 0.0868
Phi Coefficient -0.0383
Contingency Coefficient 0.0383
Cramer's V -0.0383
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 997
Left-sided Pr <= F 0.0758
Right-sided Pr >= F 0.9798
Table Probability (P) 0.0557
Two-sided Pr <= P 0.1449
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.3360 0.0907 1.2449
Cohort (Col1 Risk) 0.9941 0.9873 1.0008
Cohort (Col2 Risk) 2.9583 0.8032 10.8949
Effective Sample Size = 1998
Frequency Missing = 74
European-American Asthma 14:10 Wednesday, October 22, 2003 17
SNP = IIPGA_ADAM19_89956
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |CC |CG | Total
---------+--------+--------+
Control | 494 | 9 | 503
| 49.45 | 0.90 | 50.35
---------+--------+--------+
Case | 493 | 3 | 496
| 49.35 | 0.30 | 49.65
---------+--------+--------+
Total 987 12 999
98.80 1.20 100.00
Frequency Missing = 37
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 2.9521 0.0858
Likelihood Ratio Chi-Square 1 3.0915 0.0787
Continuity Adj. Chi-Square 1 2.0384 0.1534
Mantel-Haenszel Chi-Square 1 2.9492 0.0859
Phi Coefficient -0.0544
Contingency Coefficient 0.0543
Cramer's V -0.0544
Pearson Chi-Square Test
----------------------------------
Chi-Square 2.9521
DF 1
Asymptotic Pr > ChiSq 0.0858
Exact Pr >= ChiSq 0.1437
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 494
Left-sided Pr <= F 0.0752
Right-sided Pr >= F 0.9801
Table Probability (P) 0.0553
Two-sided Pr <= P 0.1437
European-American Asthma 14:10 Wednesday, October 22, 2003 18
SNP = IIPGA_ADAM19_89956
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) 0.3340 0.0899 1.2411
Cohort (Col1 Risk) 0.9881 0.9747 1.0017
Cohort (Col2 Risk) 2.9583 0.8056 10.8628
Odds Ratio (Case-Control Study)
-----------------------------------
Odds Ratio 0.3340
Asymptotic Conf Limits
95% Lower Conf Limit 0.0899
95% Upper Conf Limit 1.2411
Exact Conf Limits
95% Lower Conf Limit 0.0579
95% Upper Conf Limit 1.3500
Effective Sample Size = 999
Frequency Missing = 37