Module 100

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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: 20
Num genes: 544 (see 1652 additional genes for this module)
Num experiments: 1280 (301 induced, 979 repressed)
Parent module: 137
Children modules: 66


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.
Nutt03 26
Pomeroy02 31
Corpus_callosum_3
Corpus_callosum_2
Corpus_callosum_1
Fetal_brain_1
Fetal_brain_2
Whole_Brain_2
Cerebellum_2
Cerebellum_1
Amygdala_1
Cortex
Thalamus_2
Thalamus_1
Amygdala_2
Caudate_nucleus_2
Caudate_nucleus_1
Whole_Brain_1
Pituitary_gland
Pomeroy02 32


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
Acute leukemia (Leukemia*) Leukemia* 1.6e-26 128 13.0 978 141 1945
Cancer and cell line (Leukemia*) Leukemia* 1.6e-26 128 13.0 978 141 1945
Cancer (Leukemia*) Leukemia* 1.6e-26 128 13.0 978 141 1945
Hematologic cancer and cell line (Leukemia*) Leukemia* 1.6e-26 128 13.0 978 141 1945
Hematologic cancer (Leukemia*) Leukemia* 1.6e-26 128 13.0 978 141 1945
Hematologic samples and cell lines (Leukemia*) Leukemia* 1.6e-26 128 13.0 978 141 1945
Leukemia (Leukemia*) Leukemia* 1.6e-26 128 13.0 978 141 1945
Leukemia or leukemia cell line (Leukemia*) Leukemia* 1.6e-26 128 13.0 978 141 1945
Monocytes (Leukemia*) Leukemia* 1.6e-26 128 13.0 978 141 1945
Non small cell lung cancer and cell line (Lung cancer*) Lung cancer* 3.2e-23 168 17.1 978 205 1945
Non small cell lung cancer (Lung cancer*) Lung cancer* 3.2e-23 168 17.1 978 205 1945
Cancer and cell line (Neuro tumors*) Neuro tumors* 4.0e-22 83 8.4 978 86 1945
Cancer (Neuro tumors*) Neuro tumors* 4.0e-22 83 8.4 978 86 1945
CNS cancer or cell line (Neuro tumors*) Neuro tumors* 1.2e-20 78 7.9 978 81 1945
CNS tumor (Neuro tumors*) Neuro tumors* 1.2e-20 78 7.9 978 81 1945
Liver tissue (Liver cancer*) Liver cancer* 3.4e-20 78 25.9 301 187 1945
Lymphoma (B lymphoma) B lymphoma 6.3e-20 53 74.6 71 77 245
Liver tissue, cancer or cell line (Liver cancer*) Liver cancer* 1.6e-18 78 25.9 301 197 1945
Hematologic samples and cell lines (B lymphoma) B lymphoma 1.9e-17 64 90.1 71 121 245
CNS tissue, cancer or cell line (Neuro tumors*) Neuro tumors* 5.5e-17 78 7.9 978 85 1945
Lung tissue, cancer or cell line (Lung cancer*) Lung cancer* 5.8e-17 202 20.6 978 276 1945
Cancer and cell line (Lung cancer*) Lung cancer* 1.0e-15 185 18.9 978 252 1945
Cancer (Lung cancer*) Lung cancer* 1.0e-15 185 18.9 978 252 1945
Cancer and cell line (Various tumors*) Various tumors* 3.4e-14 89 9.1 978 105 1945
Cancer (Various tumors*) Various tumors* 3.4e-14 89 9.1 978 105 1945
Hepatitis infected liver (Liver cancer*) Liver cancer* 4.3e-14 61 20.2 301 156 1945
Lung cancer (Lung cancer*) Lung cancer* 5.4e-14 173 17.6 978 238 1945
Lung cancer or cell line (Lung cancer*) Lung cancer* 5.4e-14 173 17.6 978 238 1945
Lung carcinoid (Lung cancer) Lung cancer 1.5e-13 19 32.7 58 20 276
Non-tumor liver tissue (Liver cancer) Liver cancer 7.2e-13 54 66.6 81 76 207
Cancer and cell line (Liver cancer) Liver cancer 3.0e-11 65 90.2 72 126 207
CNS tissue, cancer or cell line (Various tumors) Various tumors 2.2e-10 10 100 10 21 154
Breast tissue or cancer (Breast cancer*) Breast cancer* 5.9e-09 43 14.2 301 118 1945
Female hormonal tissue or cancer (Breast cancer*) Breast cancer* 5.9e-09 43 14.2 301 118 1945
Adenocarcinoma (Breast cancer*) Breast cancer* 4.2e-08 40 13.2 301 112 1945
Breast cancer (Breast cancer*) Breast cancer* 4.2e-08 40 13.2 301 112 1945
Cancer (Breast cancer*) Breast cancer* 4.2e-08 40 13.2 301 112 1945
Female hormonal cancer (Breast cancer*) Breast cancer* 4.2e-08 40 13.2 301 112 1945
Prostate (Prostate cancer*) Prostate cancer* 1.2e-07 76 7.7 978 101 1945
Female hormonal cancer or cell line (Breast cancer*) Breast cancer* 2.0e-06 40 13.2 301 127 1945
Female hormonal tissue, cancer or cell line (Breast cancer*) Breast cancer* 2.1e-06 43 14.2 301 141 1945
Breast cancer or cell line (Breast cancer*) Breast cancer* 2.5e-06 40 13.2 301 128 1945
Breast tissue, cancer or cell line (Breast cancer*) Breast cancer* 2.6e-06 43 14.2 301 142 1945
Cell line (NCI60*) NCI60* 4.4e-06 93 9.5 978 135 1945
Normal cerebellum tissue (Neuro tumors) Neuro tumors 5.8e-06 4 66.6 6 4 90
Normal CNS tissue (Neuro tumors) Neuro tumors 5.8e-06 4 66.6 6 4 90
Normal tissue (Neuro tumors) Neuro tumors 5.8e-06 4 66.6 6 4 90
Cancer (Liver cancer) Liver cancer 7.2e-06 55 76.3 72 115 207
Epithelial cell line (NCI60) NCI60 1.0e-05 31 32.9 94 32 139
Liver cancer cell line (Liver cancer) Liver cancer 1.6e-05 10 13.8 72 10 207
Adenocarcinoma (Lung cancer) Lung cancer 1.7e-05 137 67.8 202 166 276
Cancer and cell line (NCI60*) NCI60* 1.8e-05 93 9.5 978 138 1945
Normal CNS tissue (Various tumors) Various tumors 4.5e-05 4 40 10 5 154
Cancer and cell line (NCI60*) NCI60* 4.9e-05 39 12.9 301 138 1945
Cancer and cell line (Breast cancer*) Breast cancer* 5.0e-05 40 13.2 301 143 1945
CNS cancer or cell line (Various tumors) Various tumors 7.8e-05 6 60 10 16 154
CNS tumor (Various tumors) Various tumors 7.8e-05 6 60 10 16 154
Cell line (Liver cancer) Liver cancer 0.0001 10 13.8 72 11 207
Diffuse large B cell lymphoma tumor or cell line (B lymphoma) B lymphoma 0.0001 52 73.2 71 134 245
Hepatocellular carcinoma (Liver cancer) Liver cancer 0.0001 49 68.0 72 104 207
Cancer and cell line (Gliomas*) Gliomas* 0.0001 36 3.6 978 47 1945
Cancer (Gliomas*) Gliomas* 0.0001 36 3.6 978 47 1945
CNS cancer or cell line (Gliomas*) Gliomas* 0.0001 36 3.6 978 47 1945
CNS tissue, cancer or cell line (Gliomas*) Gliomas* 0.0001 36 3.6 978 47 1945
CNS tumor (Gliomas*) Gliomas* 0.0001 36 3.6 978 47 1945
Normal cerebellum tissue (Various tumors) Various tumors 0.0002 3 30 10 3 154
Lymphoma or lymphoma cell line (B lymphoma) B lymphoma 0.0002 60 84.5 71 167 245
Breast cancer cell line (Breast cancer) Breast cancer 0.0002 13 24.5 53 17 152
Adenocarcinoma (Liver cancer) Liver cancer 0.0002 46 63.8 72 97 207
Cell line (NCI60*) NCI60* 0.0003 36 11.9 301 135 1945
Cell line (Breast cancer) Breast cancer 0.0003 19 35.8 53 30 152


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
neurogenesis 3.3e-09 38 10.2 372 169 4566
synaptic transmission 3.4e-07 27 7.2 372 116 4566
organogenesis 4.6e-05 46 12.3 372 315 4566
vesicle-mediated transport 8.7e-05 32 8.6 372 196 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 544 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 1280 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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