Module 513 -- Collagen and collagen binding proteins

Jump to: Home | General properties | Gene sets | Enriched clinical annotations | Enriched Go annotations | Visual display
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: 9 (see 1698 additional genes for this module)
Num experiments: 394 (179 induced, 215 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.
fibrillar collagen
collagen binding


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
Diffuse large B cell lymphoma - DLBCL (B lymphoma) B lymphoma 1.8e-12 40 97.5 41 126 245
Diffuse large B cell lymphoma tumor or cell line (B lymphoma) B lymphoma 3.2e-11 40 97.5 41 134 245
Lung carcinoid (Lung cancer) Lung cancer 4.0e-10 16 32 50 20 276
Cancer and cell line (Gliomas*) Gliomas* 1.2e-07 19 8.8 215 47 1945
Cancer (Gliomas*) Gliomas* 1.2e-07 19 8.8 215 47 1945
CNS cancer or cell line (Gliomas*) Gliomas* 1.2e-07 19 8.8 215 47 1945
CNS tissue, cancer or cell line (Gliomas*) Gliomas* 1.2e-07 19 8.8 215 47 1945
CNS tumor (Gliomas*) Gliomas* 1.2e-07 19 8.8 215 47 1945
Cell line (NCI60*) NCI60* 3.6e-07 35 16.2 215 135 1945
Cancer (B lymphoma*) B lymphoma* 4.5e-07 40 22.3 179 200 1945
Hematologic cancer (B lymphoma*) B lymphoma* 4.5e-07 40 22.3 179 200 1945
Chronic lymphocytic leukemia (B lymphoma) B lymphoma 5.4e-07 22 46.8 47 46 245
Leukemia (B lymphoma) B lymphoma 5.4e-07 22 46.8 47 46 245
Leukemia or leukemia cell line (B lymphoma) B lymphoma 5.4e-07 22 46.8 47 46 245
Lymphoma or lymphoma cell line (B lymphoma) B lymphoma 6.3e-07 40 97.5 41 167 245
Cancer and cell line (NCI60*) NCI60* 6.5e-07 35 16.2 215 138 1945
Cancer and cell line (B lymphoma*) B lymphoma* 3.0e-06 40 22.3 179 214 1945
Hematologic cancer and cell line (B lymphoma*) B lymphoma* 3.0e-06 40 22.3 179 214 1945
Breast cancer cell line (Breast cancer) Breast cancer 3.0e-06 10 47.6 21 17 152
Adenocarcinoma (Breast cancer*) Breast cancer* 3.7e-06 26 14.5 179 112 1945
Breast cancer (Breast cancer*) Breast cancer* 3.7e-06 26 14.5 179 112 1945
Cancer (Breast cancer*) Breast cancer* 3.7e-06 26 14.5 179 112 1945
Female hormonal cancer (Breast cancer*) Breast cancer* 3.7e-06 26 14.5 179 112 1945
Cell line (Breast cancer) Breast cancer 4.1e-06 13 61.9 21 30 152
Female hormonal cancer cell line (Breast cancer) Breast cancer 9.7e-06 9 42.8 21 15 152
Breast tissue or cancer (Breast cancer*) Breast cancer* 1.0e-05 26 14.5 179 118 1945
Female hormonal tissue or cancer (Breast cancer*) Breast cancer* 1.0e-05 26 14.5 179 118 1945
Female hormonal cancer or cell line (Breast cancer*) Breast cancer* 1.4e-05 27 15.0 179 127 1945
Breast cancer or cell line (Breast cancer*) Breast cancer* 1.6e-05 27 15.0 179 128 1945
GC B like DLBCL (B lymphoma) B lymphoma 1.7e-05 20 48.7 41 53 245
B cells (B lymphoma*) B lymphoma* 2.2e-05 40 22.3 179 231 1945
Lymphocytes (B lymphoma*) B lymphoma* 3.3e-05 47 21.8 215 244 1945
Lymphocytes (B lymphoma*) B lymphoma* 3.6e-05 41 22.9 179 244 1945
Cancer and cell line (Lung cancer*) Lung cancer* 7.9e-05 47 21.8 215 252 1945
Cancer (Lung cancer*) Lung cancer* 7.9e-05 47 21.8 215 252 1945
Lung tissue, cancer or cell line (Lung cancer*) Lung cancer* 9.9e-05 50 23.2 215 276 1945
Female hormonal tissue, cancer or cell line (Breast cancer*) Breast cancer* 0.0001 27 15.0 179 141 1945
Breast tissue, cancer or cell line (Breast cancer*) Breast cancer* 0.0001 27 15.0 179 142 1945
Cancer and cell line (Breast cancer*) Breast cancer* 0.0001 27 15.0 179 143 1945
Lung cancer (Lung cancer*) Lung cancer* 0.0001 44 20.4 215 238 1945
Lung cancer or cell line (Lung cancer*) Lung cancer* 0.0001 44 20.4 215 238 1945
CNS tissue, cancer or cell line (Neuro tumors*) Neuro tumors* 0.0002 21 9.7 215 85 1945
Memory B cells (B lymphoma) B lymphoma 0.0002 5 10.6 47 5 245
Normal lymphocytes (B lymphoma) B lymphoma 0.0003 14 29.7 47 31 245
B cells (B lymphoma*) B lymphoma* 0.0003 42 19.5 215 231 1945


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
fibrillar collagen 6.6e-18 6 66.6 9 6 4566
collagen 1.1e-14 7 77.7 9 31 4566
extracellular matrix structural constituent 1.1e-09 7 77.7 9 149 4566
collagen binding 5.2e-08 3 33.3 9 5 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.
 
 





 >4x