Module 92 -- Secreted signaling molecules

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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: 149 (see 2653 additional genes for this module)
Num experiments: 888 (285 induced, 603 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.
secretion
cell_cell signaling


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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
Lung tissue, cancer or cell line (Lung cancer*) Lung cancer* 1.2e-70 217 35.9 603 276 1945
Cancer and cell line (Lung cancer*) Lung cancer* 1.4e-65 200 33.1 603 252 1945
Cancer (Lung cancer*) Lung cancer* 1.4e-65 200 33.1 603 252 1945
Lung cancer (Lung cancer*) Lung cancer* 2.0e-59 187 31.0 603 238 1945
Lung cancer or cell line (Lung cancer*) Lung cancer* 2.0e-59 187 31.0 603 238 1945
Non small cell lung cancer and cell line (Lung cancer*) Lung cancer* 2.8e-51 162 26.8 603 205 1945
Non small cell lung cancer (Lung cancer*) Lung cancer* 2.8e-51 162 26.8 603 205 1945
Non-tumor liver tissue (Liver cancer) Liver cancer 2.6e-21 57 80.2 71 76 207
Stimulated immune cells (Stimulated PBMC*) Stimulated PBMC* 5.3e-19 63 22.1 285 143 1945
Hematologic samples (Stimulated PBMC*) Stimulated PBMC* 9.0e-19 65 22.8 285 152 1945
Lymphocytes (Stimulated PBMC*) Stimulated PBMC* 9.0e-19 65 22.8 285 152 1945
Primary blood mononuclear cells (Stimulated PBMC*) Stimulated PBMC* 9.0e-19 65 22.8 285 152 1945
Cancer and cell line (Liver cancer) Liver cancer 4.2e-16 69 95.8 72 126 207
Hematologic samples and cell lines (Stimulated PBMC*) Stimulated PBMC* 7.2e-16 68 23.8 285 182 1945
Monocytes (Stimulated PBMC*) Stimulated PBMC* 7.2e-16 68 23.8 285 182 1945
Liver tissue (Liver cancer*) Liver cancer* 9.0e-16 69 24.2 285 187 1945
Liver tissue, cancer or cell line (Liver cancer*) Liver cancer* 2.1e-14 69 24.2 285 197 1945
Hepatitis infected liver (Liver cancer*) Liver cancer* 4.7e-11 54 18.9 285 156 1945
Cancer (Liver cancer) Liver cancer 1.6e-09 60 83.3 72 115 207
B cells (Leukemia) Leukemia 2.0e-08 48 66.6 72 62 141
Bone marrow (Leukemia) Leukemia 2.4e-08 23 31.9 72 23 141
Cell line (Breast cancer) Breast cancer 3.8e-08 19 55.8 34 30 152
Hepatocellular carcinoma (Liver cancer) Liver cancer 1.4e-07 54 75 72 104 207
Acute leukemia (Leukemia*) Leukemia* 1.9e-07 72 11.9 603 141 1945
Cancer and cell line (Leukemia*) Leukemia* 1.9e-07 72 11.9 603 141 1945
Cancer (Leukemia*) Leukemia* 1.9e-07 72 11.9 603 141 1945
Hematologic cancer and cell line (Leukemia*) Leukemia* 1.9e-07 72 11.9 603 141 1945
Hematologic cancer (Leukemia*) Leukemia* 1.9e-07 72 11.9 603 141 1945
Hematologic samples and cell lines (Leukemia*) Leukemia* 1.9e-07 72 11.9 603 141 1945
Leukemia (Leukemia*) Leukemia* 1.9e-07 72 11.9 603 141 1945
Leukemia or leukemia cell line (Leukemia*) Leukemia* 1.9e-07 72 11.9 603 141 1945
Monocytes (Leukemia*) Leukemia* 1.9e-07 72 11.9 603 141 1945
Unstimulated immune cells (Stimulated PBMC) Stimulated PBMC 2.9e-07 23 50 46 39 182
Breast cancer cell line (Breast cancer) Breast cancer 5.4e-07 13 38.2 34 17 152
Adenocarcinoma (Liver cancer) Liver cancer 1.6e-06 50 69.4 72 97 207
Primary blood mononuclear cells (Leukemia) Leukemia 4.0e-06 20 27.7 72 21 141
Female hormonal cancer cell line (Breast cancer) Breast cancer 1.1e-05 11 32.3 34 15 152
Hematologic samples and cell lines (Various tumors) Various tumors 4.8e-05 21 46.6 45 37 154
Hematologic samples (Various tumors) Various tumors 4.8e-05 21 46.6 45 37 154
Hematologic cancer and cell line (Stimulated PBMC) Stimulated PBMC 5.3e-05 17 36.9 46 30 182
Macrophages (Stimulated PBMC) Stimulated PBMC 5.3e-05 17 36.9 46 30 182
Normal tissue (Liver cancer) Liver cancer 6.4e-05 12 16.9 71 14 207
Live bacteria stimulated immune cells (Stimulated PBMC) Stimulated PBMC 0.0001 5 18.5 27 5 148
Stage T1 (Lung cancer) Lung cancer 0.0002 139 83.2 167 153 195
Invasive liver tumor (Liver cancer) Liver cancer 0.0003 23 31.9 72 38 207
Activated B like DLBCL (B lymphoma) B lymphoma 0.0003 9 40.9 22 30 245
Diffuse large B cell lymphoma - DLBCL (B lymphoma) B lymphoma 0.0004 19 86.3 22 126 245


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
secretion 2.1e-199 144 96.6 149 240 4566
cell-cell signaling 1.0e-169 126 84.5 149 194 4566
receptor binding 3.3e-66 79 53.0 149 235 4566
signal transducer activity 3.8e-34 102 68.4 149 1026 4566
cell communication 1.3e-29 97 65.1 149 1030 4566
chemokine receptor binding 9.9e-29 24 16.1 149 35 4566
signal transduction 4.8e-28 86 57.7 149 831 4566
response to extracellular stimulus 1.5e-24 64 42.9 149 500 4566
response to biotic stimulus 6.3e-24 69 46.3 149 600 4566
immune response 1.3e-23 61 40.9 149 469 4566
chemotaxis 1.4e-22 27 18.1 149 73 4566
energy taxis 2.2e-22 27 18.1 149 74 4566
taxis 5.0e-22 27 18.1 149 76 4566
binding 9.3e-22 90 60.4 149 1103 4566
extracellular space 5.5e-21 40 26.8 149 212 4566
inflammatory response 7.1e-21 30 20.1 149 108 4566
growth factor activity 2.7e-20 28 18.7 149 95 4566
thermoregulation 4.1e-20 29 19.4 149 105 4566
digestion 5.3e-16 16 10.7 149 33 4566
T-cell activation 7.2e-16 34 22.8 149 207 4566
lymphocyte activation 9.8e-16 34 22.8 149 209 4566
cytokine activity 1.6e-14 19 12.7 149 61 4566
defense response 1.6e-14 37 24.8 149 272 4566
hormone activity 8.4e-14 17 11.4 149 50 4566
regulation of T-cell proliferation 2.0e-13 19 12.7 149 69 4566
lymphocyte proliferation 2.7e-13 19 12.7 149 70 4566
positive regulation of cell proliferation 1.9e-12 18 12.0 149 68 4566
calcium ion homeostasis 6.8e-12 10 6.7 149 16 4566
response to stress 5.4e-10 57 38.2 149 792 4566
metal ion homeostasis 1.7e-08 10 6.7 149 30 4566
cation homeostasis 2.4e-08 10 6.7 149 31 4566
cell ion homeostasis 4.9e-08 10 6.7 149 33 4566
transmission of nerve impulse 8.4e-08 6 4.0 149 9 4566
response to pest/pathogen/parasite 2.1e-07 20 13.4 149 163 4566
G-protein coupled receptor protein signaling pathway 8.4e-07 24 16.1 149 245 4566
cell surface receptor linked signal transduction 8.0e-06 23 15.4 149 259 4566
regulation of neurotransmitter levels 1.0e-05 7 4.6 149 25 4566
neurotransmitter secretion 1.0e-05 6 4.0 149 17 4566
humoral immune response 2.3e-05 14 9.3 149 118 4566
development 2.6e-05 36 24.1 149 554 4566
peptide hormone 2.8e-05 6 4.0 149 20 4566
heparin binding 3.3e-05 8 5.3 149 40 4566
toxin activity 3.5e-05 4 2.6 149 7 4566
exocytosis 5.4e-05 5 3.3 149 14 4566
circulation 6.7e-05 9 6.0 149 56 4566
glycosaminoglycan binding 6.9e-05 8 5.3 149 44 4566
humoral defense mechanism (sensu Invertebrata) 9.5e-05 10 6.7 149 72 4566
viral host cell process manipulation 0.0001 12 8.0 149 102 4566
conjugation without cellular fusion 0.0001 15 10.0 149 152 4566
protein secretion 0.0001 4 2.6 149 9 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 888 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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