Table 1 |
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GO analysis of repeat variants |
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|
Term |
GO id |
Variants |
Non-variants |
Statistical tests |
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|
|
|
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|
Linked |
Not linked |
Linked |
Not linked |
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|
|
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|
(a) Primary hypothesis |
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|
Defense response |
GO:0006952 |
9 |
150 |
475 |
7,979 |
Chi-squared test 0.98 |
Logistic regression 0.88 |
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|
(b) All level 4 |
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|
Fishers exact |
Logistic regression |
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|
Fishers exact |
Bonferroni |
Logistic regression |
Bonferroni |
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|
Most significant terms |
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|
Protein binding |
GO:0005515 |
45 |
114 |
1,354 |
7,100 |
<0.00001 |
<0.0006 |
<0.00001 |
<0.0006 |
|
Morphogenesis |
GO:0009653 |
28 |
131 |
783 |
7,671 |
0.001 |
0.064 |
0.001 |
0.064 |
|
Intracellular |
GO:0005622 |
93 |
66 |
3,845 |
4,609 |
0.001 |
0.064 |
0.004 |
0.256 |
|
Transcription cofactor activity |
GO:0003712 |
10 |
149 |
166 |
8,288 |
0.002 |
0.128 |
<0.00001 |
<0.0006 |
|
RNA polymerase II transcription factor activity |
GO:0003702 |
9 |
150 |
150 |
8,304 |
0.003 |
0.192 |
0.001 |
0.064 |
|
Protein serine/threonine phosphatase complex |
GO:0008287 |
3 |
156 |
19 |
8,435 |
0.007 |
0.448 |
<0.00001 |
<0.0006 |
|
Helicase activity |
GO:0004386 |
6 |
153 |
93 |
8,361 |
0.01 |
0.64 |
0.007 |
0.448 |
|
Structural constituent of epidermis |
GO:0030280 |
2 |
157 |
7 |
8,447 |
0.011 |
0.704 |
0.001 |
0.064 |
|
Regulation of physiological process |
GO:0050791 |
37 |
122 |
1,339 |
7,115 |
0.016 |
1.024 |
0.014 |
0.896 |
|
Death |
GO:0016265 |
11 |
148 |
272 |
8,182 |
0.02 |
1.28 |
0.01 |
0.64 |
|
Pattern specification |
GO:0007389 |
2 |
157 |
17 |
8,437 |
0.047 |
3.008 |
0.013 |
0.832 |
|
Antigen binding |
GO:0003823 |
2 |
157 |
18 |
8,436 |
0.052 |
3.328 |
0.021 |
1.344 |
|
|
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|
O'Dushlaine et al. Genome Biology 2005 6:R69 doi:10.1186/gb-2005-6-8-r69 |
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