Module 361 -- B-Lymphoma expression clusters

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:	10
Num genes:	152 (see 641 additional genes for this module)
Num experiments:	440 (146 induced, 294 repressed)
Parent module:	436
Children modules:	301

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.
Alizadeh00 27
Rosenwald01 42
Alizadeh00 13
Rosenwald01 31
Rosenwald01 9
Alizadeh00 18
Rosenwald01 48
Alizadeh00 11
Rosenwald01 40
Alizadeh00 8

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
Lymphocytes (B lymphoma*)	B lymphoma*	1.3e-37	79	54.1	146	244	1945
B cells (B lymphoma*)	B lymphoma*	1.8e-37	77	52.7	146	231	1945
Cancer (B lymphoma*)	B lymphoma*	8.0e-31	66	45.2	146	200	1945
Hematologic cancer (B lymphoma*)	B lymphoma*	8.0e-31	66	45.2	146	200	1945
Cancer and cell line (B lymphoma*)	B lymphoma*	9.0e-29	66	45.2	146	214	1945
Hematologic cancer and cell line (B lymphoma*)	B lymphoma*	9.0e-29	66	45.2	146	214	1945
Hematologic cancer and cell line (Stimulated PBMC)	Stimulated PBMC	5.4e-28	30	81.0	37	30	182
Macrophages (Stimulated PBMC)	Stimulated PBMC	5.4e-28	30	81.0	37	30	182
Chronic lymphocytic leukemia (B lymphoma)	B lymphoma	2.6e-26	45	56.9	79	46	245
Leukemia (B lymphoma)	B lymphoma	2.6e-26	45	56.9	79	46	245
Leukemia or leukemia cell line (B lymphoma)	B lymphoma	2.6e-26	45	56.9	79	46	245
Lymphocytes (B lymphoma*)	B lymphoma*	1.7e-13	79	26.8	294	244	1945
Cancer and cell line (Various tumors*)	Various tumors*	2.9e-13	46	15.6	294	105	1945
Cancer (Various tumors*)	Various tumors*	2.9e-13	46	15.6	294	105	1945
Cancer and cell line (B lymphoma*)	B lymphoma*	3.3e-13	72	24.4	294	214	1945
Hematologic cancer and cell line (B lymphoma*)	B lymphoma*	3.3e-13	72	24.4	294	214	1945
Breast cancer cell line (Breast cancer)	Breast cancer	1.7e-10	13	61.9	21	17	152
Diffuse large B cell lymphoma tumor or cell line (B lymphoma)	B lymphoma	4.0e-10	66	82.5	80	134	245
B cells (B lymphoma*)	B lymphoma*	6.6e-10	69	23.4	294	231	1945
Cell line (Breast cancer)	Breast cancer	1.0e-09	16	76.1	21	30	152
Female hormonal cancer cell line (Breast cancer)	Breast cancer	2.1e-08	11	52.3	21	15	152
Cell line (B lymphoma)	B lymphoma	6.8e-08	14	17.5	80	14	245
Cancer (B lymphoma*)	B lymphoma*	7.3e-08	58	19.7	294	200	1945
Hematologic cancer (B lymphoma*)	B lymphoma*	7.3e-08	58	19.7	294	200	1945
Lymphoma or lymphoma cell line (B lymphoma)	B lymphoma	4.3e-07	71	88.7	80	167	245
CNS tissue, cancer or cell line (Various tumors)	Various tumors	4.6e-07	19	30.6	62	21	154
Lung carcinoid (Lung cancer)	Lung cancer	2.1e-06	11	31.4	35	20	276
Diffuse large B cell lymphoma - DLBCL (B lymphoma)	B lymphoma	3.1e-06	58	72.5	80	126	245
B. petrussis stimulated immune cells (Stimulated PBMC)	Stimulated PBMC	2.2e-05	23	82.1	28	67	144
Liver cancer cell line (Liver cancer)	Liver cancer	5.7e-05	5	41.6	12	10	207
CNS cancer or cell line (Various tumors)	Various tumors	6.1e-05	14	22.5	62	16	154
CNS tumor (Various tumors)	Various tumors	6.1e-05	14	22.5	62	16	154
Cell line (Liver cancer)	Liver cancer	0.0001	5	41.6	12	11	207
B. petrussis 537 stimulated immune cells (Stimulated PBMC)	Stimulated PBMC	0.0002	5	17.8	28	5	144
B. petrussis A2 stimulated immune cells (Stimulated PBMC)	Stimulated PBMC	0.0002	5	17.8	28	5	144
B. petrussis Tox 6 stimulated immune cells (Stimulated PBMC)	Stimulated PBMC	0.0002	5	17.8	28	5	144
Activated B like DLBCL (B lymphoma)	B lymphoma	0.0002	19	23.7	80	30	245
Mesenchemal cell line (Breast cancer)	Breast cancer	0.0002	4	19.0	21	4	152

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
response to biotic stimulus	7.6e-05	16	36.3	44	600	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 440 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

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