Module 289

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:	124 (see 2131 additional genes for this module)
Num experiments:	593 (177 induced, 416 repressed)
Parent module:	375
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.
conjugation without cellular fusion
G_protein coupled receptor protein signaling pathway

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*	6.2e-20	58	32.7	177	187	1945
Liver tissue, cancer or cell line (Liver cancer*)	Liver cancer*	1.1e-18	58	32.7	177	197	1945
Hepatitis infected liver (Liver cancer*)	Liver cancer*	1.6e-18	51	28.8	177	156	1945
Acute leukemia (Leukemia*)	Leukemia*	2.2e-17	74	17.7	416	141	1945
Cancer and cell line (Leukemia*)	Leukemia*	2.2e-17	74	17.7	416	141	1945
Cancer (Leukemia*)	Leukemia*	2.2e-17	74	17.7	416	141	1945
Hematologic cancer and cell line (Leukemia*)	Leukemia*	2.2e-17	74	17.7	416	141	1945
Hematologic cancer (Leukemia*)	Leukemia*	2.2e-17	74	17.7	416	141	1945
Hematologic samples and cell lines (Leukemia*)	Leukemia*	2.2e-17	74	17.7	416	141	1945
Leukemia (Leukemia*)	Leukemia*	2.2e-17	74	17.7	416	141	1945
Leukemia or leukemia cell line (Leukemia*)	Leukemia*	2.2e-17	74	17.7	416	141	1945
Monocytes (Leukemia*)	Leukemia*	2.2e-17	74	17.7	416	141	1945
Cancer and cell line (Various tumors*)	Various tumors*	2.5e-14	57	13.7	416	105	1945
Cancer (Various tumors*)	Various tumors*	2.5e-14	57	13.7	416	105	1945
Hematologic cancer and cell line (Stimulated PBMC)	Stimulated PBMC	6.1e-14	19	79.1	24	30	182
Macrophages (Stimulated PBMC)	Stimulated PBMC	6.1e-14	19	79.1	24	30	182
Hematologic samples and cell lines (B lymphoma)	B lymphoma	1.7e-13	58	86.5	67	121	245
Lymphoma (B lymphoma)	B lymphoma	6.4e-13	45	67.1	67	77	245
Non-tumor liver tissue (Liver cancer)	Liver cancer	5.8e-12	43	74.1	58	76	207
Acute lymphocytic leukemia (Leukemia)	Leukemia	7.1e-10	72	87.8	82	99	149
Cancer and cell line (Liver cancer)	Liver cancer	7.2e-10	42	97.6	43	126	207
Lymphocytes (Leukemia)	Leukemia	7.0e-09	64	86.4	74	91	141
Activated B like DLBCL (B lymphoma)	B lymphoma	8.0e-08	12	60	20	30	245
Adenocarcinoma (Liver cancer)	Liver cancer	2.3e-07	35	81.3	43	97	207
Cancer (Liver cancer)	Liver cancer	3.6e-07	38	88.3	43	115	207
Cell line (Breast cancer)	Breast cancer	1.7e-06	15	57.6	26	30	152
B cells (Leukemia)	Leukemia	3.9e-06	46	62.1	74	62	141
B. petrussis A2 stimulated immune cells (Stimulated PBMC)	Stimulated PBMC	9.0e-06	5	31.2	16	5	144
Breast cancer cell line (Breast cancer)	Breast cancer	3.5e-05	10	38.4	26	17	152
Lymphoma or lymphoma cell line (B lymphoma)	B lymphoma	6.8e-05	58	86.5	67	167	245
Hepatocellular carcinoma (Liver cancer)	Liver cancer	7.1e-05	33	76.7	43	104	207
Female hormonal cancer cell line (Breast cancer)	Breast cancer	8.3e-05	9	34.6	26	15	152
Invasive liver tumor (Liver cancer)	Liver cancer	0.0001	17	39.5	43	38	207
Bone marrow (Leukemia)	Leukemia	0.0002	20	27.0	74	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
G-protein coupled receptor protein signaling pathway	3.7e-174	124	100	124	245	4566
conjugation without cellular fusion	3.0e-94	79	63.7	124	152	4566
G-protein coupled receptor activity	2.1e-67	67	54.0	124	170	4566
signal transducer activity	1.2e-63	114	91.9	124	1026	4566
rhodopsin-like receptor activity	4.5e-54	56	45.1	124	147	4566
transmembrane receptor activity	3.0e-48	77	62.0	124	448	4566
receptor activity	1.5e-40	78	62.9	124	582	4566
cell surface receptor linked signal transduction	8.1e-40	57	45.9	124	259	4566
sensory perception	1.1e-38	82	66.1	124	700	4566
chemosensory perception	2.3e-36	79	63.7	124	682	4566
signal transduction	8.0e-34	83	66.9	124	831	4566
cell communication	2.2e-29	86	69.3	124	1030	4566
peptide receptor activity	5.6e-29	27	21.7	124	55	4566
peptide receptor activity\, G-protein coupled	3.6e-28	27	21.7	124	58	4566
response to abiotic stimulus	5.2e-26	89	71.7	124	1228	4566
G-protein signaling\, coupled to IP3 second messenger (phospholipase C activating)	2.0e-24	23	18.5	124	48	4566
integral to plasma membrane	1.1e-21	60	48.3	124	612	4566
neuropeptide signaling pathway	1.3e-20	18	14.5	124	33	4566
taxis	3.1e-20	24	19.3	124	76	4566
chemotaxis	2.2e-19	23	18.5	124	73	4566
energy taxis	3.1e-19	23	18.5	124	74	4566
G-protein signaling\, coupled to cAMP nucleotide second messenger	7.1e-19	18	14.5	124	39	4566
glutamate receptor activity	3.7e-18	18	14.5	124	42	4566
G-protein signaling\, coupled to cyclic nucleotide second messenger	5.2e-18	20	16.1	124	57	4566
cytosolic calcium ion concentration elevation	8.8e-17	14	11.2	124	24	4566
cAMP-mediated signaling	2.8e-16	15	12.0	124	31	4566
inflammatory response	3.2e-15	23	18.5	124	108	4566
G-protein signaling\, adenylate cyclase inhibiting pathway	1.4e-14	11	8.8	124	16	4566
thermoregulation	2.0e-14	22	17.7	124	105	4566
G-protein chemoattractant receptor activity	1.0e-11	9	7.2	124	14	4566
nucleotide receptor activity	2.6e-11	9	7.2	124	15	4566
response to starvation	6.1e-10	8	6.4	124	14	4566
intracellular signaling cascade	7.2e-10	30	24.1	124	319	4566
negative regulation of adenylate cyclase activity	1.0e-09	7	5.6	124	10	4566
synaptic transmission	1.1e-09	18	14.5	124	116	4566
feeding behavior	1.2e-09	8	6.4	124	15	4566
chemokine binding	2.7e-09	7	5.6	124	11	4566
regulation of G-protein coupled receptor protein signaling pathway	2.7e-09	7	5.6	124	11	4566
protein kinase C activation	9.5e-09	6	4.8	124	8	4566
vesicle-mediated transport	4.0e-08	21	16.9	124	196	4566
response to biotic stimulus	6.1e-08	39	31.4	124	600	4566
phosphatidylinositol-4\,5-bisphosphate hydrolysis	6.8e-08	6	4.8	124	10	4566
phospholipase C activation	6.8e-08	6	4.8	124	10	4566
heterotrimeric G-protein GTPase\, alpha-subunit	1.4e-07	6	4.8	124	11	4566
chemokine receptor binding	2.3e-07	9	7.2	124	35	4566
MAPKKK cascade (osmolarity sensing)	7.7e-07	7	5.6	124	21	4566
receptor binding	9.2e-07	21	16.9	124	235	4566
invasive growth	1.4e-06	6	4.8	124	15	4566
response to extracellular stimulus	1.9e-06	32	25.8	124	500	4566
MAPKKK cascade	2.9e-06	7	5.6	124	25	4566
coreceptor activity	3.0e-06	5	4.0	124	10	4566
two-component signal transduction system (phosphorelay)	3.9e-06	7	5.6	124	26	4566
cellular morphogenesis	7.2e-06	6	4.8	124	19	4566
neuropeptide receptor activity	7.4e-06	4	3.2	124	6	4566
prostaglandin receptor activity	7.4e-06	4	3.2	124	6	4566
activation of MAPK	9.2e-06	5	4.0	124	12	4566
metabotropic glutamate\, GABA-B-like receptor activity	9.2e-06	5	4.0	124	12	4566
response to stress	1.2e-05	41	33.0	124	792	4566
neuropeptide hormone activity	1.4e-05	5	4.0	124	13	4566
cell motility	4.5e-05	12	9.6	124	113	4566
cellular defense response	4.8e-05	8	6.4	124	50	4566
secretion	6.7e-05	18	14.5	124	240	4566
gamma-aminobutyric acid signaling pathway	9.5e-05	4	3.2	124	10	4566
perception of mechanical stimulus	9.5e-05	4	3.2	124	10	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.

Note: Since there are 593 experiments, this image does not display the individual experiment names, but rather condenses each experiment to a single pixel without displaying its name. You can fully view the image for this module within GeneXPress, by loading any of the four files mentioned in the line above

>4x