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 108
SNP = IL23R_45606
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |A |G | Total
---------+--------+--------+
Control | 270 | 664 | 934
| 14.47 | 35.58 | 50.05
---------+--------+--------+
Case | 290 | 642 | 932
| 15.54 | 34.41 | 49.95
---------+--------+--------+
Total 560 1306 1866
30.01 69.99 100.00
Frequency Missing = 196
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 1.0827 0.2981
Likelihood Ratio Chi-Square 1 1.0829 0.2980
Continuity Adj. Chi-Square 1 0.9802 0.3222
Mantel-Haenszel Chi-Square 1 1.0822 0.2982
Phi Coefficient -0.0241
Contingency Coefficient 0.0241
Cramer's V -0.0241
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 270
Left-sided Pr <= F 0.1611
Right-sided Pr >= F 0.8624
Table Probability (P) 0.0235
Two-sided Pr <= P 0.3125
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.9002 0.7384 1.0974
Cohort (Col1 Risk) 0.9290 0.8087 1.0673
Cohort (Col2 Risk) 1.0321 0.9725 1.0953
Effective Sample Size = 1866
Frequency Missing = 196
European-American Asthma 11:50 Wednesday, February 4, 2004 109
SNP = IL23R_45606
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |1 |3 | Total
---------+--------+--------+
Control | 223 | 244 | 467
| 23.90 | 26.15 | 50.05
---------+--------+--------+
Case | 242 | 224 | 466
| 25.94 | 24.01 | 49.95
---------+--------+--------+
Total 465 468 933
49.84 50.16 100.00
Frequency Missing = 98
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 1.6300 0.2017
Likelihood Ratio Chi-Square 1 1.6304 0.2016
Continuity Adj. Chi-Square 1 1.4671 0.2258
Mantel-Haenszel Chi-Square 1 1.6282 0.2019
Phi Coefficient -0.0418
Contingency Coefficient 0.0418
Cramer's V -0.0418
Pearson Chi-Square Test
----------------------------------
Chi-Square 1.6300
DF 1
Asymptotic Pr > ChiSq 0.2017
Exact Pr >= ChiSq 0.2137
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 223
Left-sided Pr <= F 0.1129
Right-sided Pr >= F 0.9102
Table Probability (P) 0.0231
Two-sided Pr <= P 0.2137
European-American Asthma 11:50 Wednesday, February 4, 2004 110
SNP = IL23R_45606
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) 0.8460 0.6543 1.0937
Cohort (Col1 Risk) 0.9195 0.8083 1.0461
Cohort (Col2 Risk) 1.0870 0.9562 1.2356
Odds Ratio (Case-Control Study)
-----------------------------------
Odds Ratio 0.8460
Asymptotic Conf Limits
95% Lower Conf Limit 0.6543
95% Upper Conf Limit 1.0937
Exact Conf Limits
95% Lower Conf Limit 0.6489
95% Upper Conf Limit 1.1029
Effective Sample Size = 933
Frequency Missing = 98
European-American Asthma 11:50 Wednesday, February 4, 2004 111
SNP = IL23R_58228
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Control | 755 | 93 | 848
| 45.21 | 5.57 | 50.78
---------+--------+--------+
Case | 747 | 75 | 822
| 44.73 | 4.49 | 49.22
---------+--------+--------+
Total 1502 168 1670
89.94 10.06 100.00
Frequency Missing = 392
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 1.5668 0.2107
Likelihood Ratio Chi-Square 1 1.5701 0.2102
Continuity Adj. Chi-Square 1 1.3697 0.2419
Mantel-Haenszel Chi-Square 1 1.5658 0.2108
Phi Coefficient -0.0306
Contingency Coefficient 0.0306
Cramer's V -0.0306
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 755
Left-sided Pr <= F 0.1209
Right-sided Pr >= F 0.9089
Table Probability (P) 0.0297
Two-sided Pr <= P 0.2228
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.8151 0.5915 1.1231
Cohort (Col1 Risk) 0.9797 0.9488 1.0116
Cohort (Col2 Risk) 1.2020 0.9006 1.6042
Effective Sample Size = 1670
Frequency Missing = 392
WARNING: 19% of the data are missing.
European-American Asthma 11:50 Wednesday, February 4, 2004 112
SNP = IL23R_58228
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |2 |4 | Total
---------+--------+--------+
Control | 421 | 3 | 424
| 50.42 | 0.36 | 50.78
---------+--------+--------+
Case | 406 | 5 | 411
| 48.62 | 0.60 | 49.22
---------+--------+--------+
Total 827 8 835
99.04 0.96 100.00
Frequency Missing = 196
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.5698 0.4503
Likelihood Ratio Chi-Square 1 0.5750 0.4483
Continuity Adj. Chi-Square 1 0.1596 0.6895
Mantel-Haenszel Chi-Square 1 0.5691 0.4506
Phi Coefficient 0.0261
Contingency Coefficient 0.0261
Cramer's V 0.0261
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 0.5698
DF 1
Asymptotic Pr > ChiSq 0.4503
Exact Pr >= ChiSq 0.4995
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 421
Left-sided Pr <= F 0.8666
Right-sided Pr >= F 0.3457
Table Probability (P) 0.2123
Two-sided Pr <= P 0.4995
European-American Asthma 11:50 Wednesday, February 4, 2004 113
SNP = IL23R_58228
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) 1.7282 0.4104 7.2786
Cohort (Col1 Risk) 1.0052 0.9918 1.0187
Cohort (Col2 Risk) 0.5816 0.1399 2.4180
Odds Ratio (Case-Control Study)
-----------------------------------
Odds Ratio 1.7282
Asymptotic Conf Limits
95% Lower Conf Limit 0.4104
95% Upper Conf Limit 7.2786
Exact Conf Limits
95% Lower Conf Limit 0.3336
95% Upper Conf Limit 11.1933
Effective Sample Size = 835
Frequency Missing = 196
WARNING: 19% of the data are missing.
European-American Asthma 11:50 Wednesday, February 4, 2004 114
SNP = IL23R_6653
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |G |T | Total
---------+--------+--------+
Control | 432 | 510 | 942
| 23.23 | 27.42 | 50.65
---------+--------+--------+
Case | 429 | 489 | 918
| 23.06 | 26.29 | 49.35
---------+--------+--------+
Total 861 999 1860
46.29 53.71 100.00
Frequency Missing = 202
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.1422 0.7061
Likelihood Ratio Chi-Square 1 0.1422 0.7061
Continuity Adj. Chi-Square 1 0.1093 0.7409
Mantel-Haenszel Chi-Square 1 0.1422 0.7061
Phi Coefficient -0.0087
Contingency Coefficient 0.0087
Cramer's V -0.0087
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 432
Left-sided Pr <= F 0.3705
Right-sided Pr >= F 0.6641
Table Probability (P) 0.0345
Two-sided Pr <= P 0.7101
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.9655 0.8046 1.1586
Cohort (Col1 Risk) 0.9813 0.8898 1.0823
Cohort (Col2 Risk) 1.0164 0.9341 1.1059
Effective Sample Size = 1860
Frequency Missing = 202
European-American Asthma 11:50 Wednesday, February 4, 2004 115
SNP = IL23R_6653
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |3 |4 | Total
---------+--------+--------+
Control | 331 | 140 | 471
| 35.59 | 15.05 | 50.65
---------+--------+--------+
Case | 324 | 135 | 459
| 34.84 | 14.52 | 49.35
---------+--------+--------+
Total 655 275 930
70.43 29.57 100.00
Frequency Missing = 101
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.0109 0.9169
Likelihood Ratio Chi-Square 1 0.0109 0.9169
Continuity Adj. Chi-Square 1 0.0011 0.9741
Mantel-Haenszel Chi-Square 1 0.0109 0.9170
Phi Coefficient -0.0034
Contingency Coefficient 0.0034
Cramer's V -0.0034
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.0109
DF 1
Asymptotic Pr > ChiSq 0.9169
Exact Pr >= ChiSq 0.9428
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 331
Left-sided Pr <= F 0.4871
Right-sided Pr >= F 0.5699
Table Probability (P) 0.0570
Two-sided Pr <= P 0.9428
European-American Asthma 11:50 Wednesday, February 4, 2004 116
SNP = IL23R_6653
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) 0.9851 0.7433 1.3057
Cohort (Col1 Risk) 0.9956 0.9160 1.0820
Cohort (Col2 Risk) 1.0106 0.8287 1.2324
Odds Ratio (Case-Control Study)
-----------------------------------
Odds Ratio 0.9851
Asymptotic Conf Limits
95% Lower Conf Limit 0.7433
95% Upper Conf Limit 1.3057
Exact Conf Limits
95% Lower Conf Limit 0.7358
95% Upper Conf Limit 1.3188
Effective Sample Size = 930
Frequency Missing = 101
European-American Asthma 11:50 Wednesday, February 4, 2004 117
SNP = IL23R_6804
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Control | 571 | 35 | 606
| 41.68 | 2.55 | 44.23
---------+--------+--------+
Case | 717 | 47 | 764
| 52.34 | 3.43 | 55.77
---------+--------+--------+
Total 1288 82 1370
94.01 5.99 100.00
Frequency Missing = 692
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.0850 0.7706
Likelihood Ratio Chi-Square 1 0.0852 0.7703
Continuity Adj. Chi-Square 1 0.0313 0.8596
Mantel-Haenszel Chi-Square 1 0.0850 0.7707
Phi Coefficient 0.0079
Contingency Coefficient 0.0079
Cramer's V 0.0079
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 571
Left-sided Pr <= F 0.6564
Right-sided Pr >= F 0.4313
Table Probability (P) 0.0877
Two-sided Pr <= P 0.8191
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.0694 0.6811 1.6792
Cohort (Col1 Risk) 1.0040 0.9775 1.0313
Cohort (Col2 Risk) 0.9388 0.6141 1.4352
Effective Sample Size = 1370
Frequency Missing = 692
WARNING: 34% of the data are missing.
European-American Asthma 11:50 Wednesday, February 4, 2004 118
SNP = IL23R_6804
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |2 |4 | Total
---------+--------+--------+
Control | 300 | 3 | 303
| 43.80 | 0.44 | 44.23
---------+--------+--------+
Case | 379 | 3 | 382
| 55.33 | 0.44 | 55.77
---------+--------+--------+
Total 679 6 685
99.12 0.88 100.00
Frequency Missing = 346
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.0816 0.7751
Likelihood Ratio Chi-Square 1 0.0811 0.7759
Continuity Adj. Chi-Square 1 0.0000 1.0000
Mantel-Haenszel Chi-Square 1 0.0815 0.7753
Phi Coefficient -0.0109
Contingency Coefficient 0.0109
Cramer's V -0.0109
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 0.0816
DF 1
Asymptotic Pr > ChiSq 0.7751
Exact Pr >= ChiSq 1.0000
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 300
Left-sided Pr <= F 0.5432
Right-sided Pr >= F 0.7582
Table Probability (P) 0.3014
Two-sided Pr <= P 1.0000
European-American Asthma 11:50 Wednesday, February 4, 2004 119
SNP = IL23R_6804
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) 0.7916 0.1586 3.9499
Cohort (Col1 Risk) 0.9979 0.9837 1.0124
Cohort (Col2 Risk) 1.2607 0.2563 6.2020
Odds Ratio (Case-Control Study)
-----------------------------------
Odds Ratio 0.7916
Asymptotic Conf Limits
95% Lower Conf Limit 0.1586
95% Upper Conf Limit 3.9499
Exact Conf Limits
95% Lower Conf Limit 0.1053
95% Upper Conf Limit 5.9545
Effective Sample Size = 685
Frequency Missing = 346
WARNING: 34% of the data are missing.
European-American Asthma 11:50 Wednesday, February 4, 2004 120
SNP = IL23R_74982
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Control | 856 | 88 | 944
| 45.73 | 4.70 | 50.43
---------+--------+--------+
Case | 844 | 84 | 928
| 45.09 | 4.49 | 49.57
---------+--------+--------+
Total 1700 172 1872
90.81 9.19 100.00
Frequency Missing = 190
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.0410 0.8396
Likelihood Ratio Chi-Square 1 0.0410 0.8396
Continuity Adj. Chi-Square 1 0.0150 0.9026
Mantel-Haenszel Chi-Square 1 0.0410 0.8396
Phi Coefficient -0.0047
Contingency Coefficient 0.0047
Cramer's V -0.0047
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 856
Left-sided Pr <= F 0.4514
Right-sided Pr >= F 0.6111
Table Probability (P) 0.0625
Two-sided Pr <= P 0.8730
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.9681 0.7074 1.3249
Cohort (Col1 Risk) 0.9970 0.9687 1.0262
Cohort (Col2 Risk) 1.0299 0.7745 1.3694
Effective Sample Size = 1872
Frequency Missing = 190
European-American Asthma 11:50 Wednesday, February 4, 2004 121
SNP = IL23R_74982
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |2 |4 | Total
---------+--------+--------+
Control | 387 | 85 | 472
| 41.35 | 9.08 | 50.43
---------+--------+--------+
Case | 385 | 79 | 464
| 41.13 | 8.44 | 49.57
---------+--------+--------+
Total 772 164 936
82.48 17.52 100.00
Frequency Missing = 95
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.1563 0.6926
Likelihood Ratio Chi-Square 1 0.1564 0.6925
Continuity Adj. Chi-Square 1 0.0957 0.7570
Mantel-Haenszel Chi-Square 1 0.1562 0.6927
Phi Coefficient -0.0129
Contingency Coefficient 0.0129
Cramer's V -0.0129
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.1563
DF 1
Asymptotic Pr > ChiSq 0.6926
Exact Pr >= ChiSq 0.7311
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 387
Left-sided Pr <= F 0.3786
Right-sided Pr >= F 0.6848
Table Probability (P) 0.0634
Two-sided Pr <= P 0.7311
European-American Asthma 11:50 Wednesday, February 4, 2004 122
SNP = IL23R_74982
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) 0.9342 0.6668 1.3089
Cohort (Col1 Risk) 0.9882 0.9315 1.0483
Cohort (Col2 Risk) 1.0577 0.8008 1.3970
Odds Ratio (Case-Control Study)
-----------------------------------
Odds Ratio 0.9342
Asymptotic Conf Limits
95% Lower Conf Limit 0.6668
95% Upper Conf Limit 1.3089
Exact Conf Limits
95% Lower Conf Limit 0.6569
95% Upper Conf Limit 1.3277
Effective Sample Size = 936
Frequency Missing = 95
European-American Asthma 11:50 Wednesday, February 4, 2004 123
SNP = IL23R_78415
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Control | 341 | 459 | 800
| 20.25 | 27.26 | 47.51
---------+--------+--------+
Case | 358 | 526 | 884
| 21.26 | 31.24 | 52.49
---------+--------+--------+
Total 699 985 1684
41.51 58.49 100.00
Frequency Missing = 378
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.7827 0.3763
Likelihood Ratio Chi-Square 1 0.7826 0.3763
Continuity Adj. Chi-Square 1 0.6976 0.4036
Mantel-Haenszel Chi-Square 1 0.7823 0.3764
Phi Coefficient 0.0216
Contingency Coefficient 0.0216
Cramer's V 0.0216
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 341
Left-sided Pr <= F 0.8249
Right-sided Pr >= F 0.2018
Table Probability (P) 0.0267
Two-sided Pr <= P 0.3999
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.0916 0.8990 1.3254
Cohort (Col1 Risk) 1.0525 0.9397 1.1789
Cohort (Col2 Risk) 0.9642 0.8894 1.0454
Effective Sample Size = 1684
Frequency Missing = 378
WARNING: 18% of the data are missing.
European-American Asthma 11:50 Wednesday, February 4, 2004 124
SNP = IL23R_78415
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |2 |4 | Total
---------+--------+--------+
Control | 261 | 139 | 400
| 31.00 | 16.51 | 47.51
---------+--------+--------+
Case | 280 | 162 | 442
| 33.25 | 19.24 | 52.49
---------+--------+--------+
Total 541 301 842
64.25 35.75 100.00
Frequency Missing = 189
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.3306 0.5653
Likelihood Ratio Chi-Square 1 0.3307 0.5652
Continuity Adj. Chi-Square 1 0.2530 0.6150
Mantel-Haenszel Chi-Square 1 0.3302 0.5656
Phi Coefficient 0.0198
Contingency Coefficient 0.0198
Cramer's V 0.0198
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.3306
DF 1
Asymptotic Pr > ChiSq 0.5653
Exact Pr >= ChiSq 0.6143
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 261
Left-sided Pr <= F 0.7411
Right-sided Pr >= F 0.3076
Table Probability (P) 0.0487
Two-sided Pr <= P 0.6143
European-American Asthma 11:50 Wednesday, February 4, 2004 125
SNP = IL23R_78415
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) 1.0864 0.8190 1.4410
Cohort (Col1 Risk) 1.0300 0.9313 1.1392
Cohort (Col2 Risk) 0.9481 0.7905 1.1372
Odds Ratio (Case-Control Study)
-----------------------------------
Odds Ratio 1.0864
Asymptotic Conf Limits
95% Lower Conf Limit 0.8190
95% Upper Conf Limit 1.4410
Exact Conf Limits
95% Lower Conf Limit 0.8110
95% Upper Conf Limit 1.4559
Effective Sample Size = 842
Frequency Missing = 189
WARNING: 18% of the data are missing.
European-American Asthma 11:50 Wednesday, February 4, 2004 126
SNP = IL23R_78799
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |A |G | Total
---------+--------+--------+
Control | 51 | 797 | 848
| 3.03 | 47.38 | 50.42
---------+--------+--------+
Case | 69 | 765 | 834
| 4.10 | 45.48 | 49.58
---------+--------+--------+
Total 120 1562 1682
7.13 92.87 100.00
Frequency Missing = 380
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 3.2393 0.0719
Likelihood Ratio Chi-Square 1 3.2493 0.0715
Continuity Adj. Chi-Square 1 2.9072 0.0882
Mantel-Haenszel Chi-Square 1 3.2373 0.0720
Phi Coefficient -0.0439
Contingency Coefficient 0.0438
Cramer's V -0.0439
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 51
Left-sided Pr <= F 0.0439
Right-sided Pr >= F 0.9711
Table Probability (P) 0.0150
Two-sided Pr <= P 0.0878
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.7095 0.4875 1.0325
Cohort (Col1 Risk) 0.7269 0.5127 1.0306
Cohort (Col2 Risk) 1.0246 0.9978 1.0522
Effective Sample Size = 1682
Frequency Missing = 380
WARNING: 18% of the data are missing.
European-American Asthma 11:50 Wednesday, February 4, 2004 127
SNP = IL23R_78799
The FREQ Procedure
Table of case_cn by gfreq7
case_cn gfreq7
Frequency|
Percent |1 |3 | Total
---------+--------+--------+
Control | 3 | 421 | 424
| 0.36 | 50.06 | 50.42
---------+--------+--------+
Case | 1 | 416 | 417
| 0.12 | 49.46 | 49.58
---------+--------+--------+
Total 4 837 841
0.48 99.52 100.00
Frequency Missing = 190
Statistics for Table of case_cn by gfreq7
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.9717 0.3243
Likelihood Ratio Chi-Square 1 1.0181 0.3130
Continuity Adj. Chi-Square 1 0.2348 0.6280
Mantel-Haenszel Chi-Square 1 0.9705 0.3246
Phi Coefficient 0.0340
Contingency Coefficient 0.0340
Cramer's V 0.0340
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 0.9717
DF 1
Asymptotic Pr > ChiSq 0.3243
Exact Pr >= ChiSq 0.6242
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 3
Left-sided Pr <= F 0.9358
Right-sided Pr >= F 0.3183
Table Probability (P) 0.2542
Two-sided Pr <= P 0.6242
European-American Asthma 11:50 Wednesday, February 4, 2004 128
SNP = IL23R_78799
The FREQ Procedure
Statistics for Table of case_cn by gfreq7
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 2.9644 0.3071 28.6138
Cohort (Col1 Risk) 2.9505 0.3082 28.2501
Cohort (Col2 Risk) 0.9953 0.9861 1.0046
Odds Ratio (Case-Control Study)
-----------------------------------
Odds Ratio 2.9644
Asymptotic Conf Limits
95% Lower Conf Limit 0.3071
95% Upper Conf Limit 28.6138
Exact Conf Limits
95% Lower Conf Limit 0.2367
95% Upper Conf Limit 155.9887
Effective Sample Size = 841
Frequency Missing = 190
WARNING: 18% of the data are missing.
European-American Asthma 11:50 Wednesday, February 4, 2004 129
SNP = IL23R_8316
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Control | 550 | 274 | 824
| 31.68 | 15.78 | 47.47
---------+--------+--------+
Case | 596 | 316 | 912
| 34.33 | 18.20 | 52.53
---------+--------+--------+
Total 1146 590 1736
66.01 33.99 100.00
Frequency Missing = 326
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.3764 0.5395
Likelihood Ratio Chi-Square 1 0.3765 0.5395
Continuity Adj. Chi-Square 1 0.3167 0.5736
Mantel-Haenszel Chi-Square 1 0.3762 0.5397
Phi Coefficient 0.0147
Contingency Coefficient 0.0147
Cramer's V 0.0147
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 550
Left-sided Pr <= F 0.7467
Right-sided Pr >= F 0.2869
Table Probability (P) 0.0335
Two-sided Pr <= P 0.5431
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.0643 0.8722 1.2986
Cohort (Col1 Risk) 1.0214 0.9547 1.0927
Cohort (Col2 Risk) 0.9597 0.8414 1.0946
Effective Sample Size = 1736
Frequency Missing = 326
WARNING: 16% of the data are missing.
European-American Asthma 11:50 Wednesday, February 4, 2004 130
SNP = IL23R_8316
The FREQ Procedure
Table of case_cn by gfreq8
case_cn gfreq8
Frequency|
Percent |2 |4 | Total
---------+--------+--------+
Control | 364 | 48 | 412
| 41.94 | 5.53 | 47.47
---------+--------+--------+
Case | 401 | 55 | 456
| 46.20 | 6.34 | 52.53
---------+--------+--------+
Total 765 103 868
88.13 11.87 100.00
Frequency Missing = 163
Statistics for Table of case_cn by gfreq8
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.0349 0.8517
Likelihood Ratio Chi-Square 1 0.0350 0.8517
Continuity Adj. Chi-Square 1 0.0067 0.9348
Mantel-Haenszel Chi-Square 1 0.0349 0.8518
Phi Coefficient 0.0063
Contingency Coefficient 0.0063
Cramer's V 0.0063
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.0349
DF 1
Asymptotic Pr > ChiSq 0.8517
Exact Pr >= ChiSq 0.9164
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 364
Left-sided Pr <= F 0.6143
Right-sided Pr >= F 0.4679
Table Probability (P) 0.0823
Two-sided Pr <= P 0.9164
European-American Asthma 11:50 Wednesday, February 4, 2004 131
SNP = IL23R_8316
The FREQ Procedure
Statistics for Table of case_cn by gfreq8
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 1.0401 0.6887 1.5709
Cohort (Col1 Risk) 1.0047 0.9568 1.0550
Cohort (Col2 Risk) 0.9659 0.6716 1.3893
Odds Ratio (Case-Control Study)
-----------------------------------
Odds Ratio 1.0401
Asymptotic Conf Limits
95% Lower Conf Limit 0.6887
95% Upper Conf Limit 1.5709
Exact Conf Limits
95% Lower Conf Limit 0.6745
95% Upper Conf Limit 1.6079
Effective Sample Size = 868
Frequency Missing = 163
WARNING: 16% of the data are missing.
European-American Asthma 11:50 Wednesday, February 4, 2004 132
SNP = IL23R_93708
The FREQ Procedure
Table of Allele Frequency
Allele Frequency
Frequency|
Percent |C |T | Total
---------+--------+--------+
Control | 655 | 203 | 858
| 37.56 | 11.64 | 49.20
---------+--------+--------+
Case | 689 | 197 | 886
| 39.51 | 11.30 | 50.80
---------+--------+--------+
Total 1344 400 1744
77.06 22.94 100.00
Frequency Missing = 318
Statistics for Table of Allele Frequency
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.5007 0.4792
Likelihood Ratio Chi-Square 1 0.5007 0.4792
Continuity Adj. Chi-Square 1 0.4233 0.5153
Mantel-Haenszel Chi-Square 1 0.5004 0.4793
Phi Coefficient -0.0169
Contingency Coefficient 0.0169
Cramer's V -0.0169
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 655
Left-sided Pr <= F 0.2576
Right-sided Pr >= F 0.7777
Table Probability (P) 0.0354
Two-sided Pr <= P 0.4945
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.9226 0.7379 1.1534
Cohort (Col1 Risk) 0.9817 0.9326 1.0333
Cohort (Col2 Risk) 1.0641 0.8959 1.2639
Effective Sample Size = 1744
Frequency Missing = 318
WARNING: 15% of the data are missing.
European-American Asthma 11:50 Wednesday, February 4, 2004 133
SNP = IL23R_93708
The FREQ Procedure
Table of case_cn by gfreq9
case_cn gfreq9
Frequency|
Percent |2 |4 | Total
---------+--------+--------+
Control | 251 | 178 | 429
| 28.78 | 20.41 | 49.20
---------+--------+--------+
Case | 272 | 171 | 443
| 31.19 | 19.61 | 50.80
---------+--------+--------+
Total 523 349 872
59.98 40.02 100.00
Frequency Missing = 159
Statistics for Table of case_cn by gfreq9
Statistic DF Value Prob
------------------------------------------------------
Chi-Square 1 0.7590 0.3836
Likelihood Ratio Chi-Square 1 0.7591 0.3836
Continuity Adj. Chi-Square 1 0.6434 0.4225
Mantel-Haenszel Chi-Square 1 0.7582 0.3839
Phi Coefficient -0.0295
Contingency Coefficient 0.0295
Cramer's V -0.0295
Pearson Chi-Square Test
----------------------------------
Chi-Square 0.7590
DF 1
Asymptotic Pr > ChiSq 0.3836
Exact Pr >= ChiSq 0.4070
Fisher's Exact Test
----------------------------------
Cell (1,1) Frequency (F) 251
Left-sided Pr <= F 0.2112
Right-sided Pr >= F 0.8265
Table Probability (P) 0.0377
Two-sided Pr <= P 0.4070
European-American Asthma 11:50 Wednesday, February 4, 2004 134
SNP = IL23R_93708
The FREQ Procedure
Statistics for Table of case_cn by gfreq9
Estimates of the Relative Risk (Row1/Row2)
Type of Study Value 95% Confidence Limits
-----------------------------------------------------------------
Case-Control (Odds Ratio) 0.8865 0.6760 1.1625
Cohort (Col1 Risk) 0.9529 0.8548 1.0623
Cohort (Col2 Risk) 1.0749 0.9136 1.2646
Odds Ratio (Case-Control Study)
-----------------------------------
Odds Ratio 0.8865
Asymptotic Conf Limits
95% Lower Conf Limit 0.6760
95% Upper Conf Limit 1.1625
Exact Conf Limits
95% Lower Conf Limit 0.6698
95% Upper Conf Limit 1.1734
Effective Sample Size = 872
Frequency Missing = 159
WARNING: 15% of the data are missing.