Module 315 -- Spindle and kinetochore

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:	16 (see 857 additional genes for this module)
Num experiments:	314 (159 induced, 155 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.
kinetochore
spindle
mitotic checkpoint

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
Hematologic cancer and cell line (Stimulated PBMC)	Stimulated PBMC	8.0e-33	29	100	29	30	182
Macrophages (Stimulated PBMC)	Stimulated PBMC	8.0e-33	29	100	29	30	182
Chronic lymphocytic leukemia (B lymphoma)	B lymphoma	1.4e-19	34	68	50	46	245
Leukemia (B lymphoma)	B lymphoma	1.4e-19	34	68	50	46	245
Leukemia or leukemia cell line (B lymphoma)	B lymphoma	1.4e-19	34	68	50	46	245
Cell line (B lymphoma)	B lymphoma	6.5e-15	14	46.6	30	14	245
Non-tumor liver tissue (Liver cancer)	Liver cancer	2.8e-13	30	93.7	32	76	207
Lymphocytes (B lymphoma*)	B lymphoma*	1.1e-11	50	32.2	155	244	1945
B cells (B lymphoma*)	B lymphoma*	2.0e-11	48	30.9	155	231	1945
Cancer (B lymphoma*)	B lymphoma*	2.2e-07	37	23.8	155	200	1945
Hematologic cancer (B lymphoma*)	B lymphoma*	2.2e-07	37	23.8	155	200	1945
B. petrussis stimulated immune cells (Stimulated PBMC)	Stimulated PBMC	1.2e-06	19	95	20	67	144
Cancer and cell line (B lymphoma*)	B lymphoma*	1.3e-06	37	23.8	155	214	1945
Hematologic cancer and cell line (B lymphoma*)	B lymphoma*	1.3e-06	37	23.8	155	214	1945
Liver tissue (Liver cancer*)	Liver cancer*	1.0e-05	32	20.6	155	187	1945
Cell line (Breast cancer)	Breast cancer	1.5e-05	14	53.8	26	30	152
Cancer and cell line (Liver cancer)	Liver cancer	2.5e-05	20	100	20	126	207
Gram negative bacteria stimulated immune cells (Stimulated PBMC)	Stimulated PBMC	3.0e-05	19	95	20	78	144
B. petrussis A2 stimulated immune cells (Stimulated PBMC)	Stimulated PBMC	3.2e-05	5	25	20	5	144
B. petrussis Tox 6 stimulated immune cells (Stimulated PBMC)	Stimulated PBMC	3.2e-05	5	25	20	5	144
Liver tissue, cancer or cell line (Liver cancer*)	Liver cancer*	3.3e-05	32	20.6	155	197	1945
Bone marrow (Leukemia)	Leukemia	3.7e-05	7	77.7	9	23	141
Cancer and cell line (Fibroblast EWS-FLI*)	Fibroblast EWS-FLI*	3.7e-05	6	3.8	155	10	1945
Cell line (Fibroblast EWS-FLI*)	Fibroblast EWS-FLI*	3.7e-05	6	3.8	155	10	1945
EWS/FLI expressing fibroblasts (Fibroblast EWS-FLI*)	Fibroblast EWS-FLI*	3.7e-05	6	3.8	155	10	1945
Fibroblasts (Fibroblast EWS-FLI*)	Fibroblast EWS-FLI*	3.7e-05	6	3.8	155	10	1945
Skin fibroblasts (Fibroblast EWS-FLI*)	Fibroblast EWS-FLI*	3.7e-05	6	3.8	155	10	1945
Cancer and cell line (Breast cancer*)	Breast cancer*	4.4e-05	26	16.3	159	143	1945
Grade 3 (Breast cancer)	Breast cancer	5.6e-05	11	100	11	38	85
Liver cancer cell line (Liver cancer)	Liver cancer	6.2e-05	6	30	20	10	207
Cell line (Liver cancer)	Liver cancer	0.0001	6	30	20	11	207
Hepatitis infected liver (Liver cancer*)	Liver cancer*	0.0001	26	16.7	155	156	1945
Centroblasts (Various tumors)	Various tumors	0.0001	3	60	5	5	154
GC B like DLBCL (Various tumors)	Various tumors	0.0001	3	60	5	5	154
Hematologic samples and cell lines (Stimulated PBMC*)	Stimulated PBMC*	0.0001	29	18.2	159	182	1945
Monocytes (Stimulated PBMC*)	Stimulated PBMC*	0.0001	29	18.2	159	182	1945
Hematologic samples (B lymphoma)	B lymphoma	0.0002	12	24	50	22	245
Normal lung tissue (Lung cancer)	Lung cancer	0.0003	5	50	10	22	276
B cells (Leukemia)	Leukemia	0.0004	9	100	9	62	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
spindle	2.2e-23	10	62.5	16	15	4566
mitosis	7.2e-17	10	62.5	16	50	4566
kinetochore	2.9e-13	6	37.5	16	11	4566
microtubule cytoskeleton	7.5e-13	11	68.7	16	176	4566
regulation of mitosis	1.0e-12	6	37.5	16	13	4566
cell cycle	2.5e-12	10	62.5	16	135	4566
mitotic checkpoint	1.4e-11	5	31.2	16	8	4566
cytoskeleton	6.3e-11	11	68.7	16	263	4566
M phase of mitotic cell cycle	1.5e-09	5	31.2	16	17	4566
regulation of transcription	2.7e-09	7	43.7	16	76	4566
nuclear division	3.9e-09	5	31.2	16	20	4566
M phase	1.6e-08	5	31.2	16	26	4566
regulation of cell cycle	2.2e-08	8	50	16	163	4566
transcription\, DNA-dependent	2.7e-08	8	50	16	167	4566
transcription	5.8e-08	8	50	16	184	4566
cell cycle checkpoint	7.0e-08	4	25	16	13	4566
mitotic cell cycle	5.6e-07	5	31.2	16	51	4566
microtubule	1.9e-06	3	18.7	16	8	4566
cytoskeleton-dependent intracellular transport	4.9e-06	4	25	16	35	4566
intracellular transport	6.9e-06	4	25	16	38	4566
cytokinesis	1.9e-05	4	25	16	49	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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