Module 562 -- MMPs

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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: 6
Num genes: 21 (see 667 additional genes for this module)
Num experiments: 323 (133 induced, 190 repressed)
Parent module: None
Children modules: 211 210


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.
Matrix Metalloproteinases
metallopeptidase activity
metalloendopeptidase activity
collagen catabolism
protein catabolism
macromolecule catabolism


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
Hematologic samples (Stimulated PBMC*) Stimulated PBMC* 1.3e-17 51 26.8 190 152 1945
Lymphocytes (Stimulated PBMC*) Stimulated PBMC* 1.3e-17 51 26.8 190 152 1945
Primary blood mononuclear cells (Stimulated PBMC*) Stimulated PBMC* 1.3e-17 51 26.8 190 152 1945
Hematologic samples and cell lines (Stimulated PBMC*) Stimulated PBMC* 7.2e-14 51 26.8 190 182 1945
Monocytes (Stimulated PBMC*) Stimulated PBMC* 7.2e-14 51 26.8 190 182 1945
Stimulated immune cells (Stimulated PBMC*) Stimulated PBMC* 1.6e-11 41 21.5 190 143 1945
Diffuse large B cell lymphoma - DLBCL (B lymphoma) B lymphoma 6.3e-11 32 100 32 126 245
Diffuse large B cell lymphoma tumor or cell line (B lymphoma) B lymphoma 6.0e-10 32 100 32 134 245
Lymphocytes (B lymphoma*) B lymphoma* 3.7e-08 50 26.3 190 244 1945
B cells (B lymphoma*) B lymphoma* 1.3e-07 47 24.7 190 231 1945
Cancer (B lymphoma*) B lymphoma* 1.4e-06 32 24.0 133 200 1945
Hematologic cancer (B lymphoma*) B lymphoma* 1.4e-06 32 24.0 133 200 1945
Lymphoma or lymphoma cell line (B lymphoma) B lymphoma 1.6e-06 32 100 32 167 245
GC B like DLBCL (B lymphoma) B lymphoma 3.7e-06 18 56.2 32 53 245
Cancer and cell line (B lymphoma*) B lymphoma* 6.6e-06 32 24.0 133 214 1945
Hematologic cancer and cell line (B lymphoma*) B lymphoma* 6.6e-06 32 24.0 133 214 1945
B cells (B lymphoma*) B lymphoma* 3.4e-05 32 24.0 133 231 1945
Activated B like DLBCL (B lymphoma) B lymphoma 5.6e-05 12 37.5 32 30 245
Cancer and cell line (B lymphoma*) B lymphoma* 8.5e-05 38 20 190 214 1945
Hematologic cancer and cell line (B lymphoma*) B lymphoma* 8.5e-05 38 20 190 214 1945
Lymphocytes (B lymphoma*) B lymphoma* 0.0001 32 24.0 133 244 1945
Hepatocellular carcinoma (Liver cancer) Liver cancer 0.0001 15 93.7 16 104 207
Node in lung (Lung cancer) Lung cancer 0.0002 4 16.6 24 5 276
Chronic lymphocytic leukemia (B lymphoma) B lymphoma 0.0002 19 38 50 46 245
Leukemia (B lymphoma) B lymphoma 0.0002 19 38 50 46 245
Leukemia or leukemia cell line (B lymphoma) B lymphoma 0.0002 19 38 50 46 245


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
metallopeptidase activity 1.9e-29 17 85 20 70 4566
metalloendopeptidase activity 1.3e-27 15 75 20 46 4566
proteolysis and peptidolysis 4.3e-22 17 85 20 176 4566
zinc ion binding 2.1e-21 15 75 20 108 4566
peptidase activity 2.2e-21 17 85 20 193 4566
transition metal ion binding 1.0e-20 16 80 20 160 4566
collagen catabolism 5.0e-20 9 45 20 13 4566
macromolecule catabolism 5.4e-19 10 50 20 25 4566
protein catabolism 5.6e-17 9 45 20 23 4566
metal ion binding 4.7e-14 16 80 20 410 4566
hydrolase activity 1.8e-12 18 90 20 783 4566
endopeptidase activity 2.2e-12 10 50 20 99 4566
binding 1.5e-08 17 85 20 1103 4566
catabolism 1.0e-07 9 45 20 215 4566
regulation of catabolism 1.8e-07 8 40 20 162 4566
catalytic activity 1.1e-06 18 90 20 1677 4566
extracellular space 1.4e-06 8 40 20 212 4566
regulation of metabolism 9.1e-06 9 45 20 365 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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