Module 407 -- Growth suppressors

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:	13 (see 718 additional genes for this module)
Num experiments:	114 (39 induced, 75 repressed)
Parent module:	465
Children modules:	173

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.
two_component signal transduction system (phosphorelay)
MAPKKK cascade
MAPKKK cascade (osmolarity sensing)

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
Acute leukemia (Leukemia*)	Leukemia*	1.0e-19	33	44	75	141	1945
Cancer and cell line (Leukemia*)	Leukemia*	1.0e-19	33	44	75	141	1945
Cancer (Leukemia*)	Leukemia*	1.0e-19	33	44	75	141	1945
Hematologic cancer and cell line (Leukemia*)	Leukemia*	1.0e-19	33	44	75	141	1945
Hematologic cancer (Leukemia*)	Leukemia*	1.0e-19	33	44	75	141	1945
Hematologic samples and cell lines (Leukemia*)	Leukemia*	1.0e-19	33	44	75	141	1945
Leukemia (Leukemia*)	Leukemia*	1.0e-19	33	44	75	141	1945
Leukemia or leukemia cell line (Leukemia*)	Leukemia*	1.0e-19	33	44	75	141	1945
Monocytes (Leukemia*)	Leukemia*	1.0e-19	33	44	75	141	1945
Non-tumor liver tissue (Liver cancer)	Liver cancer	8.8e-05	9	100	9	76	207

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
MAPKKK cascade	8.7e-32	13	100	13	25	4566
two-component signal transduction system (phosphorelay)	1.7e-31	13	100	13	26	4566
MAPKKK cascade (osmolarity sensing)	6.1e-26	11	84.6	13	21	4566
regulation of transcription	2.5e-24	13	100	13	76	4566
transcription\, DNA-dependent	1.3e-19	13	100	13	167	4566
transcription	4.8e-19	13	100	13	184	4566
inactivation of MAPK	1.6e-12	5	38.4	13	7	4566
regulation of transcription\, DNA-dependent	2.7e-12	13	100	13	595	4566
activation of MAPK	6.1e-11	5	38.4	13	12	4566
signal transduction	2.2e-10	13	100	13	831	4566
protein tyrosine/serine/threonine phosphatase activity	1.2e-08	4	30.7	13	11	4566
calcium-dependent protein serine/threonine phosphatase activity	4.0e-07	4	30.7	13	24	4566
protein phosphatase type 2C activity	4.0e-07	4	30.7	13	24	4566
protein phosphatase type 2A activity	1.0e-06	4	30.7	13	30	4566
protein serine/threonine phosphatase activity	1.0e-06	4	30.7	13	30	4566
chemotaxis	1.0e-06	5	38.4	13	73	4566
energy taxis	1.1e-06	5	38.4	13	74	4566
taxis	1.2e-06	5	38.4	13	76	4566
signal transducer activity	3.4e-06	11	84.6	13	1026	4566
enzyme regulator activity	4.4e-06	7	53.8	13	287	4566
protein amino acid dephosphorylation	1.7e-05	4	30.7	13	60	4566
protein phosphatase regulator activity	2.4e-05	4	30.7	13	65	4566
phosphatase regulator activity	2.5e-05	4	30.7	13	66	4566
G-protein coupled receptor protein signaling pathway	2.8e-05	6	46.1	13	245	4566
protein phosphatase activity	3.0e-05	4	30.7	13	69	4566
phosphoric monoester hydrolase activity	7.7e-05	4	30.7	13	87	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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