Module 75 -- Immune response

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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: 5
Num genes: 399 (see 2668 additional genes for this module)
Num experiments: 1302 (426 induced, 876 repressed)
Parent module: None
Children modules: 46


Jump to: Home | General properties | Gene sets | Enriched clinical annotations | Enriched Go annotations | Visual display
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.
response to stress
response to biotic stimulus
immune response
response to pest/pathogen/parasite
humoral immune response


Jump to: Home | General properties | Gene sets | Enriched clinical annotations | Enriched Go annotations | Visual display
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* 2.0e-30 109 25.5 426 187 1945
Acute leukemia (Leukemia*) Leukemia* 2.4e-28 124 14.1 875 141 1945
Cancer and cell line (Leukemia*) Leukemia* 2.4e-28 124 14.1 875 141 1945
Cancer (Leukemia*) Leukemia* 2.4e-28 124 14.1 875 141 1945
Hematologic cancer and cell line (Leukemia*) Leukemia* 2.4e-28 124 14.1 875 141 1945
Hematologic cancer (Leukemia*) Leukemia* 2.4e-28 124 14.1 875 141 1945
Hematologic samples and cell lines (Leukemia*) Leukemia* 2.4e-28 124 14.1 875 141 1945
Leukemia (Leukemia*) Leukemia* 2.4e-28 124 14.1 875 141 1945
Leukemia or leukemia cell line (Leukemia*) Leukemia* 2.4e-28 124 14.1 875 141 1945
Monocytes (Leukemia*) Leukemia* 2.4e-28 124 14.1 875 141 1945
Liver tissue, cancer or cell line (Liver cancer*) Liver cancer* 1.2e-27 109 25.5 426 197 1945
Non-tumor liver tissue (Liver cancer) Liver cancer 1.8e-24 73 66.9 109 76 207
Hematologic cancer and cell line (Stimulated PBMC) Stimulated PBMC 1.8e-23 30 66.6 45 30 182
Macrophages (Stimulated PBMC) Stimulated PBMC 1.8e-23 30 66.6 45 30 182
Cancer and cell line (Liver cancer) Liver cancer 1.5e-21 80 97.5 82 126 207
Hepatitis infected liver (Liver cancer*) Liver cancer* 1.1e-20 85 19.9 426 156 1945
Hematologic samples (Stimulated PBMC*) Stimulated PBMC* 3.4e-18 80 18.7 426 152 1945
Lymphocytes (Stimulated PBMC*) Stimulated PBMC* 3.4e-18 80 18.7 426 152 1945
Primary blood mononuclear cells (Stimulated PBMC*) Stimulated PBMC* 3.4e-18 80 18.7 426 152 1945
Hematologic samples and cell lines (Stimulated PBMC*) Stimulated PBMC* 1.8e-12 80 18.7 426 182 1945
Monocytes (Stimulated PBMC*) Stimulated PBMC* 1.8e-12 80 18.7 426 182 1945
Cancer (Liver cancer) Liver cancer 5.9e-12 69 84.1 82 115 207
Stimulated immune cells (Stimulated PBMC*) Stimulated PBMC* 1.8e-10 64 15.0 426 143 1945
Cancer and cell line (Lung cancer*) Lung cancer* 1.9e-10 160 18.2 875 252 1945
Cancer (Lung cancer*) Lung cancer* 1.9e-10 160 18.2 875 252 1945
Cancer and cell line (Various tumors*) Various tumors* 3.6e-10 78 8.9 875 105 1945
Cancer (Various tumors*) Various tumors* 3.6e-10 78 8.9 875 105 1945
Lung cancer (Lung cancer*) Lung cancer* 4.2e-09 149 17.0 875 238 1945
Lung cancer or cell line (Lung cancer*) Lung cancer* 4.2e-09 149 17.0 875 238 1945
Activated B like DLBCL (B lymphoma) B lymphoma 1.4e-08 19 39.5 48 30 245
Hepatocellular carcinoma (Liver cancer) Liver cancer 3.2e-07 59 71.9 82 104 207
Diffuse large B cell lymphoma - DLBCL (B lymphoma) B lymphoma 3.9e-07 40 83.3 48 126 245
B. petrussis stimulated immune cells (Stimulated PBMC) Stimulated PBMC 4.8e-07 26 86.6 30 67 144
Lung tissue, cancer or cell line (Lung cancer*) Lung cancer* 5.6e-07 162 18.5 875 276 1945
Breast tissue or cancer (Breast cancer*) Breast cancer* 1.5e-06 48 11.2 426 118 1945
Female hormonal tissue or cancer (Breast cancer*) Breast cancer* 1.5e-06 48 11.2 426 118 1945
Adenocarcinoma (Breast cancer*) Breast cancer* 1.9e-06 46 10.7 426 112 1945
Breast cancer (Breast cancer*) Breast cancer* 1.9e-06 46 10.7 426 112 1945
Cancer (Breast cancer*) Breast cancer* 1.9e-06 46 10.7 426 112 1945
Female hormonal cancer (Breast cancer*) Breast cancer* 1.9e-06 46 10.7 426 112 1945
Adenocarcinoma (Liver cancer) Liver cancer 2.0e-06 55 67.0 82 97 207
Hematologic cancer and cell line (Stimulated immune*) Stimulated immune* 2.2e-06 27 6.3 426 53 1945
Hematologic samples and cell lines (Stimulated immune*) Stimulated immune* 2.2e-06 27 6.3 426 53 1945
Macrophages (Stimulated immune*) Stimulated immune* 2.2e-06 27 6.3 426 53 1945
Monocytes (Stimulated immune*) Stimulated immune* 2.2e-06 27 6.3 426 53 1945
Invasive liver tumor (Liver cancer) Liver cancer 2.7e-06 28 34.1 82 38 207
Breast cancer cell line (Breast cancer) Breast cancer 3.5e-06 14 30.4 46 17 152
Non small cell lung cancer and cell line (Lung cancer*) Lung cancer* 3.6e-06 123 14.0 875 205 1945
Non small cell lung cancer (Lung cancer*) Lung cancer* 3.6e-06 123 14.0 875 205 1945
Cell line (Breast cancer) Breast cancer 4.0e-06 20 43.4 46 30 152
Diffuse large B cell lymphoma tumor or cell line (B lymphoma) B lymphoma 4.3e-06 40 83.3 48 134 245
Cell line (Liver cancer) Liver cancer 2.4e-05 11 13.4 82 11 207
Gram negative bacteria stimulated immune cells (Stimulated PBMC) Stimulated PBMC 3.4e-05 26 86.6 30 78 144
Female hormonal cancer cell line (Breast cancer) Breast cancer 4.0e-05 12 26.0 46 15 152
Liver cancer cell line (Liver cancer) Liver cancer 6.7e-05 10 12.1 82 10 207
Metastasis (Liver cancer) Liver cancer 6.7e-05 10 12.1 82 10 207
Normal tissue (Liver cancer) Liver cancer 8.2e-05 14 12.8 109 14 207
Female hormonal cancer or cell line (Breast cancer*) Breast cancer* 9.5e-05 46 10.7 426 127 1945
Chronic lymphocytic leukemia (B lymphoma) B lymphoma 0.0001 32 29.6 108 46 245
Leukemia (B lymphoma) B lymphoma 0.0001 32 29.6 108 46 245
Leukemia or leukemia cell line (B lymphoma) B lymphoma 0.0001 32 29.6 108 46 245
Breast cancer or cell line (Breast cancer*) Breast cancer* 0.0001 46 10.7 426 128 1945
Hematologic samples and cell lines (B lymphoma) B lymphoma 0.0001 68 62.9 108 121 245
Acute lymphocytic leukemia (Leukemia) Leukemia 0.0001 95 71.9 132 99 149
After doxorubicin chemotherapy (Breast cancer) Breast cancer 0.0002 15 88.2 17 21 38
B. petrussis 537 stimulated immune cells (Stimulated PBMC) Stimulated PBMC 0.0002 5 16.6 30 5 144
B. petrussis A2 stimulated immune cells (Stimulated PBMC) Stimulated PBMC 0.0002 5 16.6 30 5 144
B. petrussis Tox 6 stimulated immune cells (Stimulated PBMC) Stimulated PBMC 0.0002 5 16.6 30 5 144
Lymphocytes (Leukemia) Leukemia 0.0003 87 70.1 124 91 141
Female hormonal tissue, cancer or cell line (Breast cancer*) Breast cancer* 0.0003 48 11.2 426 141 1945
B cells (Leukemia) Leukemia 0.0003 61 49.1 124 62 141


Jump to: Home | General properties | Gene sets | Enriched clinical annotations | Enriched Go annotations | Visual display
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
response to biotic stimulus 0 371 92.9 399 600 4566
immune response 1.2e-230 287 71.9 399 469 4566
response to stress 6.5e-213 334 83.7 399 792 4566
defense response 2.9e-89 145 36.3 399 272 4566
response to pest/pathogen/parasite 2.3e-86 113 28.3 399 163 4566
humoral immune response 2.3e-60 81 20.3 399 118 4566
lymphocyte activation 2.5e-59 105 26.3 399 209 4566
T-cell activation 1.0e-58 104 26.0 399 207 4566
signal transducer activity 1.2e-45 213 53.3 399 1026 4566
receptor binding 1.5e-35 87 21.8 399 235 4566
defense/immunity protein activity 1.7e-33 56 14.0 399 103 4566
chemokine receptor binding 2.1e-31 32 8.0 399 35 4566
chemotaxis 2.8e-30 45 11.2 399 73 4566
energy taxis 6.7e-30 45 11.2 399 74 4566
inflammatory response 7.8e-30 54 13.5 399 108 4566
taxis 3.5e-29 45 11.2 399 76 4566
humoral defense mechanism (sensu Invertebrata) 3.9e-28 43 10.7 399 72 4566
cellular defense response 5.2e-28 36 9.0 399 50 4566
thermoregulation 2.0e-27 51 12.7 399 105 4566
complement activation 4.0e-26 25 6.2 399 26 4566
regulation of complement activation 4.7e-25 24 6.0 399 25 4566
receptor activity 8.6e-24 123 30.8 399 582 4566
transmembrane receptor activity 3.6e-23 104 26.0 399 448 4566
cell-cell signaling 9.5e-23 64 16.0 399 194 4566
complement activation\, classical pathway 7.3e-22 21 5.2 399 22 4566
cell communication 5.2e-21 170 42.6 399 1030 4566
signal transduction 3.9e-20 146 36.5 399 831 4566
secretion 2.7e-19 67 16.7 399 240 4566
extracellular space 5.4e-19 62 15.5 399 212 4566
complement activity 1.2e-17 17 4.2 399 18 4566
regulation of T-cell proliferation 9.4e-17 32 8.0 399 69 4566
lymphocyte proliferation 1.6e-16 32 8.0 399 70 4566
positive regulation of cell proliferation 5.3e-16 31 7.7 399 68 4566
cytokine activity 1.1e-14 28 7.0 399 61 4566
growth factor activity 7.8e-13 33 8.2 399 95 4566
complement activation\, alternative pathway 2.3e-11 10 2.5 399 10 4566
integral to plasma membrane 3.3e-11 100 25.0 399 612 4566
hematopoietin/interferon-class (D200-domain) cytokine receptor activity 3.6e-11 20 5.0 399 42 4566
response to extracellular stimulus 7.9e-11 86 21.5 399 500 4566
calcium ion homeostasis 2.2e-10 12 3.0 399 16 4566
antigen presentation\, peptide antigen 5.6e-10 11 2.7 399 14 4566
antigen processing 5.6e-10 11 2.7 399 14 4566
cell surface receptor linked signal transduction 1.2e-09 53 13.2 399 259 4566
interleukin receptor activity 1.3e-09 15 3.7 399 28 4566
response to viruses 1.9e-09 12 3.0 399 18 4566
interleukin binding 2.2e-09 14 3.5 399 25 4566
response to pathogenic bacteria 2.5e-09 9 2.2 399 10 4566
metal ion homeostasis 4.6e-09 15 3.7 399 30 4566
cation homeostasis 8.3e-09 15 3.7 399 31 4566
host-pathogen interaction 8.3e-09 43 10.7 399 198 4566
acute-phase response 1.2e-08 9 2.2 399 11 4566
cell ion homeostasis 2.4e-08 15 3.7 399 33 4566
MHC class I receptor activity 2.6e-08 8 2.0 399 9 4566
immunoglobulin receptor activity 2.8e-08 13 3.2 399 25 4566
cell death 7.4e-08 32 8.0 399 134 4566
death 1.1e-07 59 14.7 399 342 4566
antigen presentation\, endogenous antigen 2.7e-07 7 1.7 399 8 4566
antigen processing\, endogenous antigen via MHC class I 2.7e-07 7 1.7 399 8 4566
porin activity 1.4e-06 43 10.7 399 235 4566
cytolysis 1.7e-06 9 2.2 399 16 4566
lymphocyte antigen 2.7e-06 6 1.5 399 7 4566
antiviral response protein activity 3.5e-06 9 2.2 399 17 4566
Fc receptor activity 3.5e-06 7 1.7 399 10 4566
protein kinase activity 4.4e-06 24 6.0 399 102 4566
heterophilic cell adhesion 1.2e-05 14 3.5 399 44 4566
transmembrane receptor protein tyrosine kinase activity 1.3e-05 17 4.2 399 62 4566
conjugation without cellular fusion 1.3e-05 30 7.5 399 152 4566
heparin binding 1.9e-05 13 3.2 399 40 4566
tumor necrosis factor receptor binding 1.9e-05 7 1.7 399 12 4566
carbohydrate binding 2.2e-05 15 3.7 399 52 4566
transmembrane receptor protein kinase activity 4.9e-05 17 4.2 399 68 4566
antimicrobial peptide activity 5.0e-05 10 2.5 399 27 4566
innate immune response 5.7e-05 4 1.0 399 4 4566
glycosaminoglycan binding 5.9e-05 13 3.2 399 44 4566
coreceptor activity 6.6e-05 6 1.5 399 10 4566
G-protein chemoattractant receptor activity 7.3e-05 7 1.7 399 14 4566
response to starvation 7.3e-05 7 1.7 399 14 4566
sugar binding 7.6e-05 14 3.5 399 51 4566
antigen binding 9.0e-05 5 1.2 399 7 4566
interleukin-1\, Type I\, activating receptor activity 9.0e-05 5 1.2 399 7 4566
cellular morphogenesis 0.0001 8 2.0 399 19 4566
binding 0.0001 128 32.0 399 1103 4566
cytosolic calcium ion concentration elevation 0.0001 9 2.2 399 24 4566
feeding behavior 0.0001 7 1.7 399 15 4566
invasive growth 0.0001 7 1.7 399 15 4566


Jump to: Home | General properties | Gene sets | Enriched clinical annotations | Enriched Go annotations | Visual display
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 1302 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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