Module 521 -- T-cell proliferation genes

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:	36 (see 1726 additional genes for this module)
Num experiments:	269 (116 induced, 153 repressed)
Parent module:	None
Children modules:	None

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 T_cell proliferation
positive regulation of cell proliferation
lymphocyte proliferation

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
Prostate (Prostate cancer*)	Prostate cancer*	2.5e-60	70	45.7	153	101	1945
Stimulated immune cells (Stimulated PBMC*)	Stimulated PBMC*	4.3e-12	32	27.5	116	143	1945
Non-tumor liver tissue (Liver cancer)	Liver cancer	3.9e-11	26	92.8	28	76	207
Hematologic samples (Stimulated PBMC*)	Stimulated PBMC*	3.4e-09	29	25	116	152	1945
Lymphocytes (Stimulated PBMC*)	Stimulated PBMC*	3.4e-09	29	25	116	152	1945
Primary blood mononuclear cells (Stimulated PBMC*)	Stimulated PBMC*	3.4e-09	29	25	116	152	1945
Hematologic samples and cell lines (Stimulated PBMC*)	Stimulated PBMC*	3.8e-09	32	27.5	116	182	1945
Monocytes (Stimulated PBMC*)	Stimulated PBMC*	3.8e-09	32	27.5	116	182	1945
Unstimulated immune cells (Stimulated PBMC)	Stimulated PBMC	1.0e-08	18	69.2	26	39	182
Liver tissue (Liver cancer*)	Liver cancer*	1.6e-06	28	24.1	116	187	1945
Liver tissue, cancer or cell line (Liver cancer*)	Liver cancer*	4.8e-06	28	24.1	116	197	1945
Hepatitis infected liver (Liver cancer*)	Liver cancer*	7.0e-05	22	18.9	116	156	1945
Prostate (Prostate cancer*)	Prostate cancer*	0.0001	16	13.7	116	101	1945

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
positive regulation of cell proliferation	1.9e-71	36	100	36	68	4566
regulation of T-cell proliferation	4.0e-71	36	100	36	69	4566
lymphocyte proliferation	8.4e-71	36	100	36	70	4566
T-cell activation	1.9e-50	36	100	36	207	4566
lymphocyte activation	2.8e-50	36	100	36	209	4566
defense response	8.1e-46	36	100	36	272	4566
immune response	7.5e-37	36	100	36	469	4566
response to biotic stimulus	7.3e-33	36	100	36	600	4566
growth factor activity	2.7e-15	14	38.8	36	95	4566
cytokine activity	4.3e-13	11	30.5	36	61	4566
receptor binding	4.2e-12	16	44.4	36	235	4566
secretion	8.6e-11	15	41.6	36	240	4566
cell-cell signaling	9.6e-10	13	36.1	36	194	4566
signal transducer activity	2.1e-09	25	69.4	36	1026	4566
signal transduction	8.0e-08	21	58.3	36	831	4566
development	1.2e-06	16	44.4	36	554	4566
response to stress	1.2e-06	19	52.7	36	792	4566
cell communication	1.6e-05	20	55.5	36	1030	4566

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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