Table 2 |
|||||||||
|
Gene sets in the p53 dataset with P-value ≤ 0.001 by any of the three methods |
|||||||||
|
Gene Set |
Before standardization |
After standardization |
VSN |
||||||
|
|
|||||||||
|
Global |
Ancova |
SAM-GS |
Global |
Ancova |
SAM-GS |
Global |
Ancova |
SAM-GS |
|
|
|
|||||||||
|
ATM Pathway* |
<0.001 |
<0.001 |
<0.001 |
<0.001 |
0.002 |
<0.001 |
0.001 |
0.001 |
<0.001 |
|
BAD Pathway** |
<0.001 |
0.007 |
<0.001 |
<0.001 |
<0.001 |
<0.001 |
0.004 |
0.004 |
<0.001 |
|
Calcineurin Pathway$ |
0.068 |
0.084 |
<0.001 |
0.007 |
0.002 |
<0.001 |
0.004 |
0.005 |
0.011 |
|
Cell cycle regulator† |
0.021 |
0.017 |
<0.001 |
0.002 |
0.001 |
<0.001 |
0.002 |
<0.001 |
0.003 |
|
Hsp27Pathway** |
0.047 |
0.044 |
<0.001 |
<0.001 |
0.001 |
<0.001 |
0.011 |
0.005 |
<0.001 |
|
Mitochondria pathway** |
0.002 |
0.002 |
<0.001 |
0.007 |
0.007 |
<0.001 |
0.013 |
0.006 |
<0.001 |
|
p53 signaling pathway* |
0.112 |
0.101 |
<0.001 |
0.003 |
0.003 |
0.001 |
0.006 |
0.005 |
0.006 |
|
p53_UP* |
0.003 |
0.004 |
<0.001 |
<0.001 |
<0.001 |
<0.001 |
0.019 |
0.018 |
<0.001 |
|
p53hypoxiaPathway* |
0.626 |
0.622 |
<0.001 |
<0.001 |
<0.001 |
<0.001 |
0.044 |
0.041 |
<0.001 |
|
p53Pathway* |
0.142 |
0.150 |
<0.001 |
<0.001 |
<0.001 |
<0.001 |
<0.001 |
0.001 |
<0.001 |
|
Raccycd Pathway† |
0.177 |
0.181 |
<0.001 |
0.001 |
<0.001 |
<0.001 |
0.004 |
0.009 |
0.006 |
|
Radiation_sensitivity* |
0.119 |
0.135 |
<0.001 |
<0.001 |
<0.001 |
<0.001 |
0.014 |
0.020 |
<0.001 |
|
SA_TRKA_RECEPTOR‡ |
0.254 |
0.252 |
<0.001 |
0.001 |
<0.001 |
<0.001 |
0.004 |
0.001 |
0.006 |
|
bcl2family & reg. network** |
0.102 |
0.100 |
0.001 |
0.001 |
0.005 |
<0.001 |
0.010 |
0.014 |
0.001 |
|
Cell cycle arrest† |
0.099 |
0.099 |
0.001 |
0.027 |
0.018 |
0.005 |
0.003 |
0.005 |
0.007 |
|
Ceramide Pathway** |
0.002 |
0.006 |
0.001 |
0.004 |
0.004 |
<0.001 |
0.001 |
0.001 |
<0.001 |
|
CR_DEATH* |
0.001 |
0.004 |
0.008 |
0.029 |
0.017 |
0.004 |
0.143 |
0.108 |
0.005 |
|
|
|||||||||
|
* pathway member ** apoptosis $ p53-induced proline oxidase mediates apoptosis via a calcineurin-dependent pathway † cell cycle ‡ integrated negative feedback loop between Akt and p53 |
|||||||||
|
Liu et al. BMC Bioinformatics 2007 8:431 doi:10.1186/1471-2105-8-431 |
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