Module 474

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

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

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

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

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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