Module 230

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 1483 additional genes for this module)
Num experiments:	140 (42 induced, 98 repressed)
Parent module:	326
Children modules:	148

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.
fatty acid biosynthesis
eicosanoid metabolism
eicosanoid biosynthesis

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
Lung cancer (General compendium)	General compendium	4.2e-55	77	78.5	98	244	1946
Lung tissue, cancer or cell line (General compendium)	General compendium	1.1e-52	81	82.6	98	304	1946
Lung cancer or cell line (General compendium)	General compendium	2.3e-52	77	78.5	98	262	1946
Non small cell lung cancer (General compendium)	General compendium	1.1e-27	52	53.0	98	205	1946
Non small cell lung cancer and cell line (General compendium)	General compendium	1.0e-25	52	53.0	98	223	1946
Cancer (General compendium)	General compendium	5.0e-18	93	94.8	98	1110	1946
Cancer and cell line (General compendium)	General compendium	2.1e-11	96	97.9	98	1429	1946
Lung tissue, cancer or cell line (General compendium)	General compendium	2.3e-08	22	52.3	42	304	1946
Lung carcinoid (Lung cancer)	Lung cancer	1.2e-07	17	20.9	81	20	276
Adenocarcinoma (General compendium)	General compendium	6.6e-06	43	43.8	98	466	1946
Normal lung tissue (Lung cancer)	Lung cancer	1.1e-05	8	44.4	18	22	276
Normal tissue (Lung cancer)	Lung cancer	1.6e-05	8	44.4	18	23	276

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
fatty acid biosynthesis	7.7e-32	13	100	13	25	4609
eicosanoid biosynthesis	5.0e-27	11	84.6	13	18	4609
eicosanoid metabolism	1.1e-26	11	84.6	13	19	4609
organic acid biosynthesis	3.0e-23	11	84.6	13	33	4609
carboxylic acid biosynthesis	4.4e-23	11	84.6	13	34	4609
lipid biosynthesis	1.3e-22	11	84.6	13	37	4609
fatty acid metabolism	2.8e-20	11	84.6	13	57	4609
carboxylic acid metabolism	9.3e-16	11	84.6	13	139	4609
organic acid metabolism	1.0e-15	11	84.6	13	140	4609
leukotriene biosynthesis	4.1e-12	5	38.4	13	8	4609
prostanoid biosynthesis	4.1e-12	5	38.4	13	8	4609
electron transporter activity	4.1e-09	9	69.2	13	270	4609
oxidoreductase activity\, acting on single donors with incorporation of molecular oxygen	6.8e-08	4	30.7	13	16	4609
oxidoreductase activity	1.8e-06	7	53.8	13	255	4609
intramolecular isomerase activity	2.8e-06	3	23.0	13	11	4609
iron ion binding	4.9e-06	3	23.0	13	13	4609
thermoregulation	6.5e-06	5	38.4	13	106	4609
inflammatory response	7.4e-06	5	38.4	13	109	4609
photosynthesis\, light reaction	9.7e-06	5	38.4	13	115	4609
electron transport	1.6e-05	5	38.4	13	128	4609
transition metal ion binding	5.0e-05	5	38.4	13	161	4609
photosynthesis	5.1e-05	5	38.4	13	162	4609

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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