Module 433 -- Cytokines and GFs

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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: 61 (see 1715 additional genes for this module)
Num experiments: 374 (155 induced, 219 repressed)
Parent module: None
Children modules: None


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.
growth factor activity
cytokine activity


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
Acute leukemia (Leukemia*) Leukemia* 1.2e-23 60 27.3 219 141 1945
Cancer and cell line (Leukemia*) Leukemia* 1.2e-23 60 27.3 219 141 1945
Cancer (Leukemia*) Leukemia* 1.2e-23 60 27.3 219 141 1945
Hematologic cancer and cell line (Leukemia*) Leukemia* 1.2e-23 60 27.3 219 141 1945
Hematologic cancer (Leukemia*) Leukemia* 1.2e-23 60 27.3 219 141 1945
Hematologic samples and cell lines (Leukemia*) Leukemia* 1.2e-23 60 27.3 219 141 1945
Leukemia (Leukemia*) Leukemia* 1.2e-23 60 27.3 219 141 1945
Leukemia or leukemia cell line (Leukemia*) Leukemia* 1.2e-23 60 27.3 219 141 1945
Monocytes (Leukemia*) Leukemia* 1.2e-23 60 27.3 219 141 1945
Stimulated immune cells (Stimulated PBMC*) Stimulated PBMC* 3.0e-13 39 25.1 155 143 1945
Hematologic samples (Stimulated PBMC*) Stimulated PBMC* 2.6e-12 39 25.1 155 152 1945
Lymphocytes (Stimulated PBMC*) Stimulated PBMC* 2.6e-12 39 25.1 155 152 1945
Primary blood mononuclear cells (Stimulated PBMC*) Stimulated PBMC* 2.6e-12 39 25.1 155 152 1945
Hematologic samples and cell lines (Stimulated PBMC*) Stimulated PBMC* 2.7e-10 40 25.8 155 182 1945
Monocytes (Stimulated PBMC*) Stimulated PBMC* 2.7e-10 40 25.8 155 182 1945
B cells (Leukemia) Leukemia 1.1e-09 44 73.3 60 62 141
Unstimulated immune cells (Stimulated PBMC) Stimulated PBMC 1.0e-08 16 76.1 21 39 182
Primary blood mononuclear cells (Leukemia) Leukemia 1.5e-05 18 30 60 21 141
Melanoma cell line (NCI60) NCI60 1.5e-05 10 41.6 24 16 139
Melanoma tumor or cell line (NCI60) NCI60 1.5e-05 10 41.6 24 16 139
Bone marrow (Leukemia) Leukemia 2.4e-05 19 31.6 60 23 141
Cancer and cell line (Liver cancer) Liver cancer 4.4e-05 19 100 19 126 207
Hematologic cancer and cell line (Stimulated PBMC) Stimulated PBMC 4.8e-05 11 52.3 21 30 182
Macrophages (Stimulated PBMC) Stimulated PBMC 4.8e-05 11 52.3 21 30 182
Cancer (Liver cancer) Liver cancer 0.0001 18 94.7 19 115 207
Activated B like DLBCL (B lymphoma) B lymphoma 0.0001 6 66.6 9 30 245
Lymphocytes (Leukemia) Leukemia 0.0001 49 81.6 60 91 141
Cell line (Breast cancer) Breast cancer 0.0002 12 50 24 30 152


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
growth factor activity 4.7e-97 56 91.8 61 95 4566
receptor binding 7.2e-83 61 100 61 235 4566
cytokine activity 2.1e-43 30 49.1 61 61 4566
signal transducer activity 6.8e-41 61 100 61 1026 4566
binding 6.3e-39 61 100 61 1103 4566
cell-cell signaling 7.3e-32 34 55.7 61 194 4566
secretion 1.4e-28 34 55.7 61 240 4566
T-cell activation 6.4e-28 32 52.4 61 207 4566
lymphocyte activation 8.9e-28 32 52.4 61 209 4566
immune response 9.8e-26 40 65.5 61 469 4566
defense response 2.4e-25 33 54.0 61 272 4566
response to biotic stimulus 1.0e-22 41 67.2 61 600 4566
positive regulation of cell proliferation 1.1e-16 16 26.2 61 68 4566
regulation of T-cell proliferation 1.4e-16 16 26.2 61 69 4566
lymphocyte proliferation 1.8e-16 16 26.2 61 70 4566
extracellular space 8.9e-14 21 34.4 61 212 4566
viral host cell process manipulation 1.0e-13 16 26.2 61 102 4566
signal transduction 1.4e-13 37 60.6 61 831 4566
response to extracellular stimulus 4.8e-13 29 47.5 61 500 4566
host-pathogen interaction 3.2e-12 19 31.1 61 198 4566
cell communication 3.8e-12 39 63.9 61 1030 4566
development 6.8e-12 29 47.5 61 554 4566
embryonic development 2.8e-11 9 14.7 61 27 4566
regulation of cell cycle 1.6e-10 16 26.2 61 163 4566
pattern specification 2.2e-10 9 14.7 61 33 4566
angiogenesis 5.3e-09 7 11.4 61 21 4566
embryonic pattern specification 1.5e-08 7 11.4 61 24 4566
hematopoietin/interferon-class (D200-domain) cytokine receptor binding 4.3e-08 5 8.1 61 9 4566
skeletal development 4.6e-07 9 14.7 61 75 4566
morphogenesis 6.5e-07 18 29.5 61 366 4566
organogenesis 2.1e-06 16 26.2 61 315 4566
bone remodeling 5.3e-06 8 13.1 61 75 4566
tumor necrosis factor receptor binding 1.3e-05 4 6.5 61 12 4566
hemopoiesis 2.2e-05 3 4.9 61 5 4566
cell differentiation 6.4e-05 5 8.1 61 33 4566
response to stress 0.0001 23 37.7 61 792 4566
death 0.0001 14 22.9 61 342 4566
regulation of cell differentiation 0.0001 3 4.9 61 8 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.
 
 





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