Module 474

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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: 3
Num genes: 17 (see 1520 additional genes for this module)
Num experiments: 320 (132 induced, 188 repressed)
Parent module: None
Children modules: 190


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.
regulation of cell growth
insulin_like growth factor binding
growth factor 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
Liver tissue (Liver cancer*) Liver cancer* 1.1e-17 47 35.6 132 187 1945
Liver tissue, cancer or cell line (Liver cancer*) Liver cancer* 1.1e-16 47 35.6 132 197 1945
CNS tissue, cancer or cell line (Neuro tumors*) Neuro tumors* 1.3e-14 34 18.1 187 85 1945
Non-tumor liver tissue (Liver cancer) Liver cancer 5.3e-13 39 81.2 48 76 207
Cancer and cell line (Neuro tumors*) Neuro tumors* 6.4e-12 31 16.5 187 86 1945
Cancer (Neuro tumors*) Neuro tumors* 6.4e-12 31 16.5 187 86 1945
CNS cancer or cell line (Neuro tumors*) Neuro tumors* 6.5e-12 30 16.0 187 81 1945
CNS tumor (Neuro tumors*) Neuro tumors* 6.5e-12 30 16.0 187 81 1945
Hepatitis infected liver (Liver cancer*) Liver cancer* 9.9e-11 34 25.7 132 156 1945
Hepatocellular carcinoma (Liver cancer) Liver cancer 2.7e-10 35 94.5 37 104 207
Cancer (Liver cancer) Liver cancer 7.1e-10 36 97.2 37 115 207
Cancer and cell line (Liver cancer) Liver cancer 8.9e-10 37 100 37 126 207
Adenocarcinoma (Liver cancer) Liver cancer 4.6e-09 33 89.1 37 97 207
Hematologic samples and cell lines (Various tumors) Various tumors 2.2e-07 10 100 10 37 154
Hematologic samples (Various tumors) Various tumors 2.2e-07 10 100 10 37 154
Normal female hormonal tissue and cells (Various tumors) Various tumors 1.4e-06 6 50 12 8 154
Normal female hormonal tissue (Various tumors) Various tumors 1.4e-06 6 50 12 8 154
Hematologic cancer and cell line (Various tumors) Various tumors 1.6e-06 9 90 10 31 154
Hematologic cancer (Various tumors) Various tumors 1.6e-06 9 90 10 31 154
Primary blood mononuclear cells (Various tumors) Various tumors 1.6e-06 9 90 10 31 154
B cells (Leukemia) Leukemia 4.0e-06 14 100 14 62 141
Hepatitis infected liver (Liver cancer*) Liver cancer* 1.2e-05 32 17.1 187 156 1945
Lymphocytes (Various tumors) Various tumors 1.6e-05 8 80 10 28 154
Monocytes (Various tumors) Various tumors 1.6e-05 8 80 10 28 154
Human mammary epithelial cells (HMECs) or normal breast tissue (Various tumors) Various tumors 2.1e-05 4 33.3 12 4 154
Normal breast tissue (Various tumors) Various tumors 2.1e-05 4 33.3 12 4 154
Liver tissue (Liver cancer*) Liver cancer* 3.8e-05 35 18.7 187 187 1945
T cells (Various tumors) Various tumors 4.5e-05 4 40 10 5 154
Liver tissue, cancer or cell line (Liver cancer*) Liver cancer* 5.0e-05 36 19.2 187 197 1945
Normal tissue (Liver cancer) Liver cancer 9.4e-05 10 20.8 48 14 207
Breast tissue, cancer or cell line (Various tumors) Various tumors 0.0001 4 33.3 12 5 154
Breast tissue or cancer (Various tumors) Various tumors 0.0001 4 33.3 12 5 154
Acute lymphocytic leukemia (Leukemia) Leukemia 0.0001 20 100 20 99 149
Bone marrow (Leukemia) Leukemia 0.0002 8 57.1 14 23 141


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
regulation of cell growth 2.0e-38 16 94.1 17 25 4566
growth factor binding 3.6e-32 12 70.5 17 12 4566
insulin-like growth factor binding 2.7e-29 11 64.7 17 11 4566
response to extracellular stimulus 5.2e-15 16 94.1 17 500 4566
protein binding 5.5e-11 12 70.5 17 322 4566
cell communication 5.5e-10 16 94.1 17 1030 4566
extracellular space 5.5e-06 7 41.1 17 212 4566
binding 6.7e-05 12 70.5 17 1103 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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