Module 93 -- Oxidoreductases

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General Properties
Below we list the number of gene sets from which the module was composed was originally composed, and the number of genes and experiments that it contains. Clicking on the number of genes will display a detailed list of all the genes in the module. Clicking on the number of experiments will display a detailed list of all the experiments in the module.
Num gene sets: 2
Num genes: 182 (see 2280 additional genes for this module)
Num experiments: 547 (227 induced, 320 repressed)
Parent module: None
Children modules: None


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Gene sets
Below we list the gene sets from which the module was originally composed. Clicking on a gene set will display all the genes associated with that gene set. Also listed are all the other modules in which the gene set participates.
oxidoreductase activity
electron transporter activity


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Enriched clinical annotations
For each of the clinical annotations, we tested whether it was enriched in the set of arrays in which the module is significantly induced (or repressed). Below we list all such annotations that were enriched in this module with an FDR corrected p-value of 0.05 ('P-value' column), along with the number ('Hits' column) of induced (or repressed) module's arrays in which they appear. We also show the fraction of the module's induced (or repressed) arrays with the given annotation ('Hits (%)' column). For completeness, we also list the total number of relevant induced arrays in the module ('Module hits in category' column), total number of arrays in the compendium in which the corresponding annotation is present ('Arrays in annotation' column), and the total number of relevant arrays in the compendium ('Arrays' column). Note that the 'relevant' arrays may be different for each annotation, since it includes only arrays in which the annotation was relevant (i.e., present or not present) and excludes arrays where the value of the annotation was not known. Rows that correspond to annotations that were enriched in the induced arrays of the module have a red background, while rows corresponding to annotations enriched in the repressed arrays have a green background. For each annotation, we also list the other modules in which it was enriched.
Clinical annotation Category P-value Hits Hits(%) Module hits in category Arrays in annotation Arrays
Liver tissue (Liver cancer*) Liver cancer* 2.2e-64 110 48.4 227 187 1945
Liver tissue, cancer or cell line (Liver cancer*) Liver cancer* 5.5e-61 110 48.4 227 197 1945
Hepatitis infected liver (Liver cancer*) Liver cancer* 2.2e-46 87 38.3 227 156 1945
Cancer and cell line (Lung cancer*) Lung cancer* 2.8e-23 102 31.8 320 252 1945
Cancer (Lung cancer*) Lung cancer* 2.8e-23 102 31.8 320 252 1945
Lung tissue, cancer or cell line (Lung cancer*) Lung cancer* 1.0e-22 107 33.4 320 276 1945
Lung cancer (Lung cancer*) Lung cancer* 2.7e-17 89 27.8 320 238 1945
Lung cancer or cell line (Lung cancer*) Lung cancer* 2.7e-17 89 27.8 320 238 1945
Non-tumor liver tissue (Liver cancer) Liver cancer 1.5e-15 67 60.9 110 76 207
Cancer and cell line (Liver cancer) Liver cancer 1.7e-15 64 96.9 66 126 207
Prostate (Prostate cancer*) Prostate cancer* 5.5e-14 48 15 320 101 1945
Non small cell lung cancer and cell line (Lung cancer*) Lung cancer* 3.0e-12 72 22.5 320 205 1945
Non small cell lung cancer (Lung cancer*) Lung cancer* 3.0e-12 72 22.5 320 205 1945
Cancer (Liver cancer) Liver cancer 9.6e-08 54 81.8 66 115 207
Liver tissue, cancer or cell line (Liver cancer*) Liver cancer* 5.4e-06 56 17.5 320 197 1945
Liver cancer cell line (Liver cancer) Liver cancer 6.6e-06 10 15.1 66 10 207
Metastasis (Liver cancer) Liver cancer 6.6e-06 10 15.1 66 10 207
Adenocarcinoma (Liver cancer) Liver cancer 2.2e-05 45 68.1 66 97 207
Hematologic samples and cell lines (Various tumors) Various tumors 2.6e-05 16 57.1 28 37 154
Hematologic samples (Various tumors) Various tumors 2.6e-05 16 57.1 28 37 154
CNS cancer or cell line (Various tumors) Various tumors 3.2e-05 10 35.7 28 16 154
CNS tumor (Various tumors) Various tumors 3.2e-05 10 35.7 28 16 154
Prostate (Various tumors) Various tumors 4.1e-05 6 50 12 12 154
Cell line (Liver cancer) Liver cancer 5.3e-05 10 15.1 66 11 207
Normal tissue (Liver cancer) Liver cancer 9.4e-05 14 12.7 110 14 207
Centroblasts (Various tumors) Various tumors 0.0001 5 17.8 28 5 154
GC B like DLBCL (Various tumors) Various tumors 0.0001 5 17.8 28 5 154
Invasive liver tumor (Liver cancer) Liver cancer 0.0002 22 33.3 66 38 207
Hematologic samples (B lymphoma) B lymphoma 0.0002 7 38.8 18 22 245
Adenocarcinoma - extrapulmonary metastasis (Lung cancer) Lung cancer 0.0003 12 11.2 107 14 276
Hepatitis infected liver (Liver cancer*) Liver cancer* 0.0003 42 13.1 320 156 1945


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Enriched GO annotations
For each GO annotation, we tested whether it was enriched in the set of genes of the module. Below we list all such annotations that were enriched in this module with an FDR corrected p-value of 0.05 ('P-value' column), along with the number ('Hits' column) of the module's genes in which they appear. We also show the fraction of the module's genes with the given GO annotation that are included in this module ('Hits (%)' column). For completeness, we also list the total number of genes in the module ('Module genes' column), total number of genes in the compendium in which the corresponding annotation is present ('Genes in annotation' column), and the total number of genes in the compendium ('Genes' column).
GO annotation P-value Hits Hits(%) Module genes Genes in annotation Genes
electron transporter activity 1.6e-207 165 90.6 182 269 4566
oxidoreductase activity 1.4e-203 161 88.4 182 254 4566
electron transport 1.5e-82 78 42.8 182 128 4566
photosynthesis\, light reaction 1.5e-71 69 37.9 182 115 4566
photosynthesis 1.1e-63 73 40.1 182 162 4566
energy pathways 1.8e-62 78 42.8 182 200 4566
oxidoreductase activity\, acting on CH-OH group of donors 6.8e-31 31 17.0 182 53 4566
oxidoreductase activity\, acting on the CH-OH group of donors\, NAD or NADP as acceptor 6.8e-31 31 17.0 182 53 4566
mitochondrion 2.5e-26 49 26.9 182 207 4566
oxidoreductase activity\, acting on paired donors\, with incorporation or reduction of molecular oxygen 3.7e-26 26 14.2 182 44 4566
carboxylic acid metabolism 5.0e-25 40 21.9 182 138 4566
organic acid metabolism 8.2e-24 39 21.4 182 139 4566
catalytic activity 2.5e-20 127 69.7 182 1677 4566
monovalent inorganic cation transporter activity 4.0e-20 28 15.3 182 80 4566
oxidoreductase activity\, acting on the aldehyde or oxo group of donors 8.6e-16 13 7.1 182 17 4566
oxidoreductase activity\, acting on the CH-CH group of donors 8.6e-16 13 7.1 182 17 4566
NADH dehydrogenase (ubiquinone) activity 3.0e-15 15 8.2 182 26 4566
microsome 3.9e-15 21 11.5 182 61 4566
aldehyde metabolism 7.9e-15 10 5.4 182 10 4566
fatty acid metabolism 1.2e-14 20 10.9 182 57 4566
NADH dehydrogenase activity 4.7e-14 14 7.6 182 25 4566
oxidative phosphorylation 5.8e-14 12 6.5 182 17 4566
ion transporter activity 1.2e-13 29 15.9 182 144 4566
monooxygenase activity 3.3e-13 13 7.1 182 23 4566
peroxidase activity 3.5e-13 11 6.0 182 15 4566
alcohol dehydrogenase activity 4.8e-13 10 5.4 182 12 4566
response to xenobiotic stimulus 7.7e-13 27 14.8 182 133 4566
oxidoreductase activity\, acting on the aldehyde or oxo group of donors\, NAD or NADP as acceptor 6.9e-12 10 5.4 182 14 4566
plasmodesma 7.1e-12 24 13.1 182 114 4566
mitochondrial membrane 9.9e-12 17 9.3 182 54 4566
ATP synthesis coupled electron transport (sensu Eukarya) 2.0e-11 10 5.4 182 15 4566
cytochrome P450 activity 2.0e-11 10 5.4 182 15 4566
oxidoreductase activity\, acting on single donors with incorporation of molecular oxygen 5.1e-11 10 5.4 182 16 4566
protein-disulfide reduction 5.1e-11 10 5.4 182 16 4566
lipid metabolism 1.8e-10 25 13.7 182 143 4566
alcohol dehydrogenase activity\, zinc-dependent 2.3e-10 8 4.3 182 10 4566
aldehyde dehydrogenase activity 2.3e-10 8 4.3 182 10 4566
oxidoreductase activity\, acting on the CH-CH group of donors\, other acceptors 2.3e-10 8 4.3 182 10 4566
inner membrane 3.2e-10 12 6.5 182 29 4566
mitochondrial electron transport\, NADH to ubiquinone 3.5e-10 9 4.9 182 14 4566
sodium ion transporter activity 3.8e-10 15 8.2 182 50 4566
endoplasmic reticulum 6.2e-10 25 13.7 182 151 4566
metal ion transporter activity 6.7e-10 16 8.7 182 60 4566
cbb3-type cytochrome c oxidase 2.3e-09 8 4.3 182 12 4566
glutathione peroxidase activity 3.7e-09 6 3.2 182 6 4566
mitochondrial electron transport chain 4.8e-09 7 3.8 182 9 4566
cytochrome c oxidase activity 5.9e-09 8 4.3 182 13 4566
cation transporter activity 9.9e-09 13 7.1 182 45 4566
alcohol metabolism 1.3e-08 8 4.3 182 14 4566
fatty acid biosynthesis 1.5e-08 10 5.4 182 25 4566
membrane fraction 1.9e-08 34 18.6 182 304 4566
organic acid biosynthesis 2.6e-08 11 6.0 182 33 4566
carboxylic acid biosynthesis 3.8e-08 11 6.0 182 34 4566
hydrogen ion transporter activity 4.0e-08 13 7.1 182 50 4566
response to chemical substance 9.2e-08 33 18.1 182 308 4566
ubiquinol-cytochrome c reductase activity 9.5e-08 5 2.7 182 5 4566
disulfide oxidoreductase activity 9.5e-08 7 3.8 182 12 4566
oxidoreductase activity\, acting on paired donors\, with incorporation or reduction of molecular oxygen\, reduced flavin or flavoprotein as one donor\, and incorporation of one atom of oxygen 2.8e-07 6 3.2 182 9 4566
oxidoreductase activity\, acting on the CH-NH2 group of donors 2.8e-07 6 3.2 182 9 4566
oxidoreductase activity\, acting on the CH-NH group of donors 2.8e-07 6 3.2 182 9 4566
eicosanoid metabolism 2.8e-07 8 4.3 182 19 4566
acyl-CoA dehydrogenase activity 5.5e-07 5 2.7 182 6 4566
lipid biosynthesis 1.0e-06 10 5.4 182 37 4566
peroxisome 1.4e-06 9 4.9 182 30 4566
oxidoreductase activity\, acting on the CH-NH group of donors\, NAD or NADP as acceptor 1.8e-06 5 2.7 182 7 4566
amine metabolism 1.9e-06 9 4.9 182 31 4566
oxygen and reactive oxygen species metabolism 1.9e-06 7 3.8 182 17 4566
response to oxidative stress 1.9e-06 7 3.8 182 17 4566
eicosanoid biosynthesis 3.1e-06 7 3.8 182 18 4566
amino acid and derivative metabolism 4.6e-06 8 4.3 182 26 4566
oxidoreductase activity\, acting on NADH or NADPH 4.8e-06 5 2.7 182 8 4566
oxidoreductase activity\, acting on the CH-NH2 group of donors\, oxygen as acceptor 4.8e-06 5 2.7 182 8 4566
outer membrane 8.4e-06 6 3.2 182 14 4566
xenobiotic metabolism 9.8e-06 9 4.9 182 37 4566
amine oxidase activity 1.1e-05 4 2.1 182 5 4566
tricarboxylic acid cycle 1.3e-05 6 3.2 182 15 4566
sulfur metabolism 1.5e-05 22 12.0 182 205 4566
mitochondrial matrix 2.0e-05 7 3.8 182 23 4566
fatty acid beta-oxidation 2.0e-05 5 2.7 182 10 4566
fatty acid oxidation 2.0e-05 5 2.7 182 10 4566
oxidoreductase activity\, acting on paired donors\, with incorporation or reduction of molecular oxygen\, 2-oxoglutarate as one donor\, and incorporation of one atom each of oxygen into both donors 3.4e-05 4 2.1 182 6 4566
protein disulfide oxidoreductase activity 3.4e-05 4 2.1 182 6 4566
superoxide metabolism 3.4e-05 4 2.1 182 6 4566
aromatic compound metabolism 3.7e-05 7 3.8 182 25 4566
steroid metabolism 4.9e-05 7 3.8 182 26 4566
transition metal ion binding 5.3e-05 18 9.8 182 160 4566


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Visual display
Below is a visual display of the module. Shown are those arrays in which the module's genes significantly change, and the direction of change (induction/repression) in each array is indicated (middle, labeled 'Module changes'; red/green row). The arrays that correspond to the significant clinical attributes are also shown (top; brown rows). The gene sets that compose the module are also shown (left) along with an indication of the membership of the module genes in these gene sets.
You can also view the images within GeneXPress by loading the module gxp file file.
Note: Since there are 547 experiments, this image does not display the individual experiment names, but rather condenses each experiment to a single pixel without displaying its name. You can fully view the image for this module within GeneXPress, by loading any of the four files mentioned in the line above
 
 





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