Stability of Estimates of the False Discovery Rate (FDR) of GO Categories for Triplicate Determinations of 10, 100, or 1000 Resamplings.

GO categories with at least one instance of FDR <= 0.100 for total changed genes are displayed, sorted in ascending order by the FDR for the first column of 1000 resamplings. These results indicate that 100 resamplings provide a stable and reliable estimate of the 'true' (ie., 1000 resamplings) FDR. This table applies only to the specific example used here and is not intended to represent a more generalized conclusion. (Zeeberg and Qin, in preparation).

A version of this data are available in Excel and Text format as well.

HYPERLINKED GO CATEGORY10 Resamplings100 Resamplings1000 Resamplings
GO:0006952 defense response000000000
GO:0006955 immune response000000000
GO:0050874 organismal physiological process000000000
GO:0009613 response to pest pathogen parasite000000000
GO:0009607 response to biotic stimulus0000.00200000
GO:0009605 response to external stimulus0000.0030.00800.0030.0040.003
GO:0042221 response to chemical substance000.0140.0030.0140.0010.0070.0070.008
GO:0006950 response to stress00.050.0250.0130.0310.0230.020.0190.025
GO:0050896 response to stimulus0.0090.0360.0450.0210.0450.0420.0260.0270.032
GO:0007186 G-protein coupled receptor protein signaling pathway0.010.040.050.0230.0490.0460.0280.0290.035
GO:0009611 response to wounding0.0110.0440.0560.0260.0480.0430.0290.030.038
GO:0006968 cellular defense response0.0140.0710.0430.0330.0550.050.0350.0370.041
GO:0006959 humoral immune response0.0150.0690.0380.0350.0560.0540.0360.0370.042
GO:0006935 chemotaxis0.0120.0590.0470.0430.0540.0520.0370.0380.04
GO:0042330 taxis0.0120.0590.0470.0430.0540.0520.0370.0380.04
GO:0006874 calcium ion homeostasis0.0170.0750.0420.0380.0610.0580.0380.040.045
GO:0009628 response to abiotic stimulus0.0130.0670.0530.0470.0590.0570.0410.0430.044
GO:0006805 xenobiotic metabolism0.0220.0610.0440.0470.0590.0580.0420.0420.045
GO:0009410 response to xenobiotic stimulus0.0320.0790.0580.0620.080.0780.0540.0550.055
GO:0016064 humoral defense mechanism (sensu Vertebrata)0.0350.0950.0550.0630.080.0820.0550.0560.057
GO:0045087 innate immune response0.0330.0950.0520.070.0830.090.060.0610.062
GO:0006875 metal ion homeostasis0.0430.1260.070.0870.0930.1080.0750.0770.079
GO:0030005 di- tri-valent inorganic cation homeostasis0.0430.1260.070.0870.0930.1080.0750.0770.079
GO:0007166 cell surface receptor linked signal transduction0.0460.1330.0750.0890.0930.1090.0770.0770.08
GO:0006873 cell ion homeostasis0.0370.1230.0730.0920.090.1050.0780.0760.079
GO:0007178 transmembrane receptor protein serine threonine kinase signaling pathway0.0370.1230.0730.0920.090.1050.0780.0760.079
GO:0019884 antigen presentation exogenous antigen0.0370.1230.0730.0920.090.1050.0780.0760.079
GO:0019886 antigen processing exogenous antigen via MHC class II0.0370.1230.0730.0920.090.1050.0780.0760.079
GO:0030003 cation homeostasis0.0370.1230.0730.0920.090.1050.0780.0760.079
GO:0050801 ion homeostasis0.0370.1230.0730.0920.090.1050.0780.0760.079
GO:0009617 response to bacteria0.0380.1560.0780.0980.0980.1070.0830.0840.085
GO:0019935 cyclic-nucleotide-mediated signaling0.0380.1560.0780.0980.0980.1070.0830.0840.085
GO:0007218 neuropeptide signaling pathway0.0520.1850.1180.1150.1120.1160.0950.0950.096

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