Module 151

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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: 34
Num genes: 319 (see 1580 additional genes for this module)
Num experiments: 375 (188 induced, 187 repressed)
Parent module: None
Children modules: 114


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.
Lessnick02 4
Garber01 43
nucleic acid binding
nuclease activity
RNA binding
ribonucleoprotein complex
small ribosomal subunit
cytosolic small ribosomal subunit (sensu Eukarya)
ribosome
Perou00 22
Singh02 38
protein biosynthesis
Singh02 22
Armstrong01 27
Nutt03 15
structural constituent of ribosome
Ribosome
Cytoplasmic Ribosomal Proteins
Staunton01 40
Golub99 17
Shipp02 13
Pomeroy02 14
Ramaswamy01 33
Bhattacharjee01 20
large ribosomal subunit
cytosolic large ribosomal subunit (sensu Eukarya)
Armstrong01 32
Detweiler01 8
Golub99 7
Ross00 23
Ross01 19
Blader01 50
Iyer99 31
hydrolase activity


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
Hematologic cancer and cell line (Stimulated PBMC) Stimulated PBMC 1.3e-19 20 100 20 30 182
Macrophages (Stimulated PBMC) Stimulated PBMC 1.3e-19 20 100 20 30 182
Prostate (Prostate cancer*) Prostate cancer* 3.2e-15 38 20.3 187 101 1945
Hematologic cancer and cell line (Stimulated immune*) Stimulated immune* 6.7e-14 26 13.9 187 53 1945
Hematologic samples and cell lines (Stimulated immune*) Stimulated immune* 6.7e-14 26 13.9 187 53 1945
Macrophages (Stimulated immune*) Stimulated immune* 6.7e-14 26 13.9 187 53 1945
Monocytes (Stimulated immune*) Stimulated immune* 6.7e-14 26 13.9 187 53 1945
CNS tissue, cancer or cell line (Neuro tumors*) Neuro tumors* 2.7e-11 30 16.0 187 85 1945
CNS cancer or cell line (Neuro tumors*) Neuro tumors* 4.1e-11 29 15.5 187 81 1945
CNS tumor (Neuro tumors*) Neuro tumors* 4.1e-11 29 15.5 187 81 1945
Cancer and cell line (Neuro tumors*) Neuro tumors* 2.2e-10 29 15.5 187 86 1945
Cancer (Neuro tumors*) Neuro tumors* 2.2e-10 29 15.5 187 86 1945
CNS cancer or cell line (Various tumors) Various tumors 7.7e-10 12 60 20 16 154
CNS tumor (Various tumors) Various tumors 7.7e-10 12 60 20 16 154
CNS tissue, cancer or cell line (Various tumors) Various tumors 4.1e-09 13 65 20 21 154
Cancer and cell line (Liver cancer) Liver cancer 2.1e-08 32 100 32 126 207
Hematologic cancer and cell line (Stimulated immune*) Stimulated immune* 1.2e-07 19 10.1 187 53 1945
Hematologic samples and cell lines (Stimulated immune*) Stimulated immune* 1.2e-07 19 10.1 187 53 1945
Macrophages (Stimulated immune*) Stimulated immune* 1.2e-07 19 10.1 187 53 1945
Monocytes (Stimulated immune*) Stimulated immune* 1.2e-07 19 10.1 187 53 1945
Malignant glioblastoma (Various tumors) Various tumors 1.6e-07 8 40 20 9 154
Prostate (Prostate cancer*) Prostate cancer* 1.0e-06 26 13.9 187 101 1945
Atypical teratoid/rhabdoid tumour - CNS and other origin (Neuro tumors) Neuro tumors 4.6e-06 7 63.6 11 10 90
Cancer (Liver cancer) Liver cancer 0.0002 27 84.3 32 115 207
Adenocarcinoma (Prostate cancer) Prostate cancer 0.0003 21 80.7 26 52 102
Cancer and cell line (Prostate cancer) Prostate cancer 0.0003 21 80.7 26 52 102
Cancer (Prostate cancer) Prostate cancer 0.0003 21 80.7 26 52 102
Prostate cancer or cell line (Prostate cancer) Prostate cancer 0.0003 21 80.7 26 52 102
Prostate cancer (Prostate cancer) Prostate cancer 0.0003 21 80.7 26 52 102


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
structural constituent of ribosome 7.9e-50 52 23.0 226 81 4566
protein biosynthesis 3.0e-46 64 28.3 226 151 4566
ribosome 9.0e-43 68 30.0 226 194 4566
ribonucleoprotein complex 9.1e-41 78 34.5 226 283 4566
large ribosomal subunit 3.5e-28 26 11.5 226 34 4566
cytosolic large ribosomal subunit (sensu Eukarya) 1.3e-27 24 10.6 226 29 4566
RNA binding 1.8e-25 58 25.6 226 249 4566
nuclease activity 1.8e-24 53 23.4 226 215 4566
nucleic acid binding 2.5e-22 73 32.3 226 444 4566
cytosolic small ribosomal subunit (sensu Eukarya) 1.9e-16 17 7.5 226 27 4566
small ribosomal subunit 1.0e-14 17 7.5 226 32 4566
monovalent inorganic cation transporter activity 2.0e-14 25 11.0 226 80 4566
hydrogen ion transporter activity 8.1e-11 17 7.5 226 50 4566
mitochondrion 2.2e-10 34 15.0 226 207 4566
hydrolase activity 4.9e-10 76 33.6 226 783 4566
ion transporter activity 9.5e-10 27 11.9 226 144 4566
sodium ion transporter activity 7.9e-09 15 6.6 226 50 4566
metal ion transporter activity 1.2e-07 15 6.6 226 60 4566
electron transporter activity 2.2e-07 34 15.0 226 269 4566
translational elongation 5.2e-07 8 3.5 226 17 4566
oxidoreductase activity 5.7e-07 32 14.1 226 254 4566
translation elongation factor activity 3.0e-06 7 3.0 226 15 4566
inner membrane 6.3e-06 9 3.9 226 29 4566
mitochondrial membrane 8.7e-06 12 5.3 226 54 4566
cbb3-type cytochrome c oxidase 9.8e-06 6 2.6 226 12 4566
cytochrome c oxidase activity 1.7e-05 6 2.6 226 13 4566
NADH dehydrogenase (ubiquinone) activity 2.2e-05 8 3.5 226 26 4566
proton transport 3.4e-05 9 3.9 226 35 4566
cation transporter activity 4.9e-05 10 4.4 226 45 4566
energy pathways 0.0001 23 10.1 226 200 4566
catalytic activity 0.0001 110 48.6 226 1677 4566
mitochondrial inner membrane 0.0001 9 3.9 226 41 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.
 
 





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