Module 45 -- Whole blood genes

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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: 6
Num genes: 584 (see 2800 additional genes for this module)
Num experiments: 1222 (393 induced, 829 repressed)
Parent module: 84
Children modules: None


Jump to: Home | General properties | Gene sets | Enriched clinical annotations | Enriched Go annotations | Visual display
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.
Whole_Blood_6
Whole_Blood_3
Whole_Blood_4
Whole_Blood_1
Whole_Blood_5
Whole_Blood_2


Jump to: Home | General properties | Gene sets | Enriched clinical annotations | Enriched Go annotations | Visual display
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* 3.7e-23 95 24.1 393 187 1945
Liver tissue, cancer or cell line (Liver cancer*) Liver cancer* 5.4e-21 95 24.1 393 197 1945
Cancer and cell line (Liver cancer) Liver cancer 6.3e-18 74 96.1 77 126 207
Non-tumor liver tissue (Liver cancer) Liver cancer 6.3e-18 64 67.3 95 76 207
Hematologic cancer and cell line (Stimulated PBMC) Stimulated PBMC 5.3e-17 26 63.4 41 30 182
Macrophages (Stimulated PBMC) Stimulated PBMC 5.3e-17 26 63.4 41 30 182
Cancer and cell line (Various tumors*) Various tumors* 1.4e-16 85 10.2 828 105 1945
Cancer (Various tumors*) Various tumors* 1.4e-16 85 10.2 828 105 1945
Hepatitis infected liver (Liver cancer*) Liver cancer* 2.3e-16 75 19.0 393 156 1945
Acute lymphocytic leukemia (Leukemia) Leukemia 8.9e-11 80 86.0 93 99 149
Lymphocytes (Leukemia) Leukemia 1.1e-10 74 85.0 87 91 141
Cell line (NCI60*) NCI60* 1.4e-10 93 11.2 828 135 1945
Cancer and cell line (NCI60*) NCI60* 9.4e-10 93 11.2 828 138 1945
Cancer (Liver cancer) Liver cancer 2.1e-09 63 81.8 77 115 207
Breast cancer cell line (Breast cancer) Breast cancer 1.7e-07 14 36.8 38 17 152
Cancer and cell line (Lung cancer*) Lung cancer* 4.3e-07 144 17.3 828 252 1945
Cancer (Lung cancer*) Lung cancer* 4.3e-07 144 17.3 828 252 1945
Cell line (Breast cancer) Breast cancer 5.0e-07 19 50 38 30 152
Acute leukemia (Leukemia*) Leukemia* 1.6e-06 87 10.5 828 141 1945
Cancer and cell line (Leukemia*) Leukemia* 1.6e-06 87 10.5 828 141 1945
Cancer (Leukemia*) Leukemia* 1.6e-06 87 10.5 828 141 1945
Hematologic cancer and cell line (Leukemia*) Leukemia* 1.6e-06 87 10.5 828 141 1945
Hematologic cancer (Leukemia*) Leukemia* 1.6e-06 87 10.5 828 141 1945
Hematologic samples and cell lines (Leukemia*) Leukemia* 1.6e-06 87 10.5 828 141 1945
Leukemia (Leukemia*) Leukemia* 1.6e-06 87 10.5 828 141 1945
Leukemia or leukemia cell line (Leukemia*) Leukemia* 1.6e-06 87 10.5 828 141 1945
Monocytes (Leukemia*) Leukemia* 1.6e-06 87 10.5 828 141 1945
Prostate (Prostate cancer*) Prostate cancer* 1.8e-06 66 7.9 828 101 1945
Female hormonal cancer cell line (Breast cancer) Breast cancer 3.4e-06 12 31.5 38 15 152
Hematologic cancer and cell line (Stimulated immune*) Stimulated immune* 6.9e-06 25 6.3 393 53 1945
Hematologic samples and cell lines (Stimulated immune*) Stimulated immune* 6.9e-06 25 6.3 393 53 1945
Macrophages (Stimulated immune*) Stimulated immune* 6.9e-06 25 6.3 393 53 1945
Monocytes (Stimulated immune*) Stimulated immune* 6.9e-06 25 6.3 393 53 1945
Lung cancer (Lung cancer*) Lung cancer* 7.1e-06 133 16.0 828 238 1945
Lung cancer or cell line (Lung cancer*) Lung cancer* 7.1e-06 133 16.0 828 238 1945
Hepatocellular carcinoma (Liver cancer) Liver cancer 8.4e-06 54 70.1 77 104 207
B. petrussis stimulated immune cells (Stimulated PBMC) Stimulated PBMC 1.0e-05 24 82.7 29 67 144
Epithelial cell line (NCI60) NCI60 1.0e-05 31 32.9 94 32 139
Cell line (Liver cancer) Liver cancer 1.1e-05 11 14.2 77 11 207
Activated B like DLBCL (B lymphoma) B lymphoma 1.2e-05 16 32.6 49 30 245
Adenocarcinoma (Liver cancer) Liver cancer 1.4e-05 51 66.2 77 97 207
Diffuse large B cell lymphoma - DLBCL (B lymphoma) B lymphoma 2.9e-05 38 77.5 49 126 245
Liver cancer cell line (Liver cancer) Liver cancer 3.4e-05 10 12.9 77 10 207
Cell line (B lymphoma) B lymphoma 6.1e-05 12 14.4 83 14 245
Squamous cell lung cancer (Lung cancer) Lung cancer 8.8e-05 29 19.8 146 35 276
Lung tissue, cancer or cell line (Lung cancer*) Lung cancer* 0.0001 146 17.6 828 276 1945
B cells (Leukemia) Leukemia 0.0001 49 56.3 87 62 141
Normal tissue (Liver cancer) Liver cancer 0.0002 13 13.6 95 14 207
Diffuse large B cell lymphoma tumor or cell line (B lymphoma) B lymphoma 0.0002 38 77.5 49 134 245
B. petrussis A2 stimulated immune cells (Stimulated PBMC) Stimulated PBMC 0.0002 5 17.2 29 5 144
Non small cell lung cancer and cell line (Lung cancer*) Lung cancer* 0.0002 111 13.4 828 205 1945
Non small cell lung cancer (Lung cancer*) Lung cancer* 0.0002 111 13.4 828 205 1945
Hematologic samples and cell lines (B lymphoma) B lymphoma 0.0003 54 65.0 83 121 245
Hematologic samples (Stimulated PBMC*) Stimulated PBMC* 0.0003 48 12.2 393 152 1945
Lymphocytes (Stimulated PBMC*) Stimulated PBMC* 0.0003 48 12.2 393 152 1945
Primary blood mononuclear cells (Stimulated PBMC*) Stimulated PBMC* 0.0003 48 12.2 393 152 1945
Gram negative bacteria stimulated immune cells (Stimulated PBMC) Stimulated PBMC 0.0003 24 82.7 29 78 144


Jump to: Home | General properties | Gene sets | Enriched clinical annotations | Enriched Go annotations | Visual display
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 2.4e-18 117 28.5 410 600 4566
response to stress 5.1e-16 135 32.9 410 792 4566
immune response 2.6e-11 85 20.7 410 469 4566
integral to plasma membrane 1.8e-10 100 24.3 410 612 4566
signal transducer activity 1.7e-08 139 33.9 410 1026 4566
intracellular signaling cascade 1.4e-07 57 13.9 410 319 4566
cell communication 2.7e-07 135 32.9 410 1030 4566
receptor activity 3.1e-07 87 21.2 410 582 4566
signal transduction 3.2e-07 114 27.8 410 831 4566
transmembrane receptor activity 5.2e-07 71 17.3 410 448 4566
interleukin binding 3.7e-06 11 2.6 410 25 4566
cellular defense response 3.7e-06 16 3.9 410 50 4566
response to red/far-red light 5.1e-06 32 7.8 410 156 4566
cell surface receptor linked signal transduction 7.4e-06 45 10.9 410 259 4566
hematopoietin/interferon-class (D200-domain) cytokine receptor activity 8.9e-06 14 3.4 410 42 4566
response to pest/pathogen/parasite 1.3e-05 32 7.8 410 163 4566
interleukin receptor activity 1.4e-05 11 2.6 410 28 4566
channel/pore class transporter activity 7.0e-05 53 12.9 410 351 4566
porin activity 9.0e-05 39 9.5 410 235 4566


Jump to: Home | General properties | Gene sets | Enriched clinical annotations | Enriched Go annotations | Visual display
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 584 genes, this image does not display the individual gene names, but rather condenses each gene 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.
Note: Since there are 1222 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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