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 >4x |
Module 274 -- Vesicular transport/synapse genes |
| 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: | 2 |
| Num genes: | 82 (see 1918 additional genes for this module) |
| Num experiments: | 438 (86 induced, 352 repressed) |
| Parent module: | 379 |
| 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. | |
| vesicle_mediated transport | |
| synaptic transmission | |
| 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 |
| Lung tissue, cancer or cell line (Lung cancer*) | Lung cancer* | 1.0e-16 | 103 | 29.2 | 352 | 276 | 1945 |
| Lymphoma (B lymphoma) | B lymphoma | 1.5e-16 | 28 | 100 | 28 | 77 | 245 |
| Non small cell lung cancer and cell line (Lung cancer*) | Lung cancer* | 2.5e-16 | 84 | 23.8 | 352 | 205 | 1945 |
| Non small cell lung cancer (Lung cancer*) | Lung cancer* | 2.5e-16 | 84 | 23.8 | 352 | 205 | 1945 |
| Prostate (Prostate cancer*) | Prostate cancer* | 1.1e-13 | 50 | 14.2 | 352 | 101 | 1945 |
| Lung cancer (Lung cancer*) | Lung cancer* | 2.4e-12 | 85 | 24.1 | 352 | 238 | 1945 |
| Lung cancer or cell line (Lung cancer*) | Lung cancer* | 2.4e-12 | 85 | 24.1 | 352 | 238 | 1945 |
| Cancer and cell line (Lung cancer*) | Lung cancer* | 3.9e-12 | 88 | 25 | 352 | 252 | 1945 |
| Cancer (Lung cancer*) | Lung cancer* | 3.9e-12 | 88 | 25 | 352 | 252 | 1945 |
| Lung carcinoid (Lung cancer) | Lung cancer | 1.6e-11 | 12 | 63.1 | 19 | 20 | 276 |
| Hematologic samples and cell lines (B lymphoma) | B lymphoma | 4.4e-10 | 28 | 100 | 28 | 121 | 245 |
| Prostate (Prostate cancer*) | Prostate cancer* | 3.5e-09 | 20 | 23.2 | 86 | 101 | 1945 |
| Cancer and cell line (Various tumors*) | Various tumors* | 4.0e-09 | 44 | 12.5 | 352 | 105 | 1945 |
| Cancer (Various tumors*) | Various tumors* | 4.0e-09 | 44 | 12.5 | 352 | 105 | 1945 |
| Cancer and cell line (Gliomas*) | Gliomas* | 3.8e-08 | 25 | 7.1 | 352 | 47 | 1945 |
| Cancer (Gliomas*) | Gliomas* | 3.8e-08 | 25 | 7.1 | 352 | 47 | 1945 |
| CNS cancer or cell line (Gliomas*) | Gliomas* | 3.8e-08 | 25 | 7.1 | 352 | 47 | 1945 |
| CNS tissue, cancer or cell line (Gliomas*) | Gliomas* | 3.8e-08 | 25 | 7.1 | 352 | 47 | 1945 |
| CNS tumor (Gliomas*) | Gliomas* | 3.8e-08 | 25 | 7.1 | 352 | 47 | 1945 |
| Cancer and cell line (Neuro tumors*) | Neuro tumors* | 1.2e-07 | 36 | 10.2 | 352 | 86 | 1945 |
| Cancer (Neuro tumors*) | Neuro tumors* | 1.2e-07 | 36 | 10.2 | 352 | 86 | 1945 |
| CNS tissue, cancer or cell line (Various tumors) | Various tumors | 2.5e-07 | 8 | 88.8 | 9 | 21 | 154 |
| CNS cancer or cell line (Neuro tumors*) | Neuro tumors* | 9.6e-06 | 31 | 8.8 | 352 | 81 | 1945 |
| CNS tumor (Neuro tumors*) | Neuro tumors* | 9.6e-06 | 31 | 8.8 | 352 | 81 | 1945 |
| Lymphoma or lymphoma cell line (B lymphoma) | B lymphoma | 9.8e-06 | 28 | 100 | 28 | 167 | 245 |
| Normal CNS tissue (Various tumors) | Various tumors | 2.7e-05 | 4 | 44.4 | 9 | 5 | 154 |
| Normal cerebellum tissue (Neuro tumors) | Neuro tumors | 2.7e-05 | 4 | 50 | 8 | 4 | 90 |
| Normal CNS tissue (Neuro tumors) | Neuro tumors | 2.7e-05 | 4 | 50 | 8 | 4 | 90 |
| Normal tissue (Neuro tumors) | Neuro tumors | 2.7e-05 | 4 | 50 | 8 | 4 | 90 |
| CNS tissue, cancer or cell line (Neuro tumors*) | Neuro tumors* | 3.0e-05 | 31 | 8.8 | 352 | 85 | 1945 |
| Normal cerebellum tissue (Various tumors) | Various tumors | 0.0001 | 3 | 33.3 | 9 | 3 | 154 |
| Adenocarcinoma (Various tumors) | Various tumors | 0.0002 | 27 | 37.5 | 72 | 37 | 154 |
| 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 |
| synaptic transmission | 1.0e-140 | 80 | 97.5 | 82 | 116 | 4566 |
| vesicle-mediated transport | 1.6e-111 | 79 | 96.3 | 82 | 196 | 4566 |
| ion channel activity | 9.3e-30 | 31 | 37.8 | 82 | 117 | 4566 |
| alpha-type channel activity | 7.3e-28 | 31 | 37.8 | 82 | 133 | 4566 |
| extracellular ligand-gated ion channel activity | 3.4e-22 | 17 | 20.7 | 82 | 33 | 4566 |
| ion transport | 1.4e-20 | 29 | 35.3 | 82 | 188 | 4566 |
| ligand-gated ion channel activity | 2.5e-20 | 18 | 21.9 | 82 | 48 | 4566 |
| amine receptor activity | 2.1e-19 | 15 | 18.2 | 82 | 30 | 4566 |
| integral to plasma membrane | 2.3e-18 | 44 | 53.6 | 82 | 612 | 4566 |
| small molecule transport | 2.3e-18 | 23 | 28.0 | 82 | 121 | 4566 |
| transmembrane receptor activity | 4.4e-16 | 36 | 43.9 | 82 | 448 | 4566 |
| excitatory extracellular ligand-gated ion channel activity | 2.1e-15 | 11 | 13.4 | 82 | 19 | 4566 |
| channel/pore class transporter activity | 8.0e-15 | 31 | 37.8 | 82 | 351 | 4566 |
| transmission of nerve impulse | 6.7e-14 | 8 | 9.7 | 82 | 9 | 4566 |
| receptor activity | 2.9e-13 | 37 | 45.1 | 82 | 582 | 4566 |
| neurotransmitter receptor activity | 3.1e-13 | 10 | 12.1 | 82 | 20 | 4566 |
| cell communication | 1.4e-12 | 48 | 58.5 | 82 | 1030 | 4566 |
| G-protein coupled receptor protein signaling pathway | 2.1e-12 | 24 | 29.2 | 82 | 245 | 4566 |
| signal transduction | 3.9e-11 | 41 | 50 | 82 | 831 | 4566 |
| rhodopsin-like receptor activity | 4.9e-11 | 18 | 21.9 | 82 | 147 | 4566 |
| nicotinic acetylcholine-activated cation-selective channel activity | 5.3e-11 | 7 | 8.5 | 82 | 10 | 4566 |
| G-protein coupled receptor activity | 6.6e-11 | 19 | 23.1 | 82 | 170 | 4566 |
| synaptic vesicle | 1.6e-10 | 8 | 9.7 | 82 | 17 | 4566 |
| acetylcholine receptor activity | 2.2e-09 | 6 | 7.3 | 82 | 9 | 4566 |
| nicotinic acetylcholine-gated receptor-channel complex | 2.2e-09 | 6 | 7.3 | 82 | 9 | 4566 |
| G-protein signaling\, adenylate cyclase inhibiting pathway | 4.6e-09 | 7 | 8.5 | 82 | 16 | 4566 |
| GABA-A receptor activity | 7.8e-09 | 7 | 8.5 | 82 | 17 | 4566 |
| vesicle membrane | 9.2e-09 | 8 | 9.7 | 82 | 26 | 4566 |
| signal transducer activity | 3.2e-08 | 41 | 50 | 82 | 1026 | 4566 |
| glutamate receptor activity | 3.4e-08 | 9 | 10.9 | 82 | 42 | 4566 |
| G-protein signaling\, coupled to cyclic nucleotide second messenger | 4.3e-08 | 10 | 12.1 | 82 | 57 | 4566 |
| cell surface receptor linked signal transduction | 8.4e-08 | 19 | 23.1 | 82 | 259 | 4566 |
| glutamate-gated ion channel activity | 8.8e-08 | 5 | 6.0 | 82 | 8 | 4566 |
| inotropic glutamate receptor activity | 8.8e-08 | 5 | 6.0 | 82 | 8 | 4566 |
| potassium channel activity | 3.0e-07 | 7 | 8.5 | 82 | 27 | 4566 |
| potassium ion transport | 5.5e-07 | 8 | 9.7 | 82 | 42 | 4566 |
| cAMP-mediated signaling | 8.6e-07 | 7 | 8.5 | 82 | 31 | 4566 |
| glutamate signaling pathway | 3.2e-06 | 4 | 4.8 | 82 | 7 | 4566 |
| regulation of neurotransmitter levels | 3.7e-06 | 6 | 7.3 | 82 | 25 | 4566 |
| G-protein signaling\, coupled to cAMP nucleotide second messenger | 4.4e-06 | 7 | 8.5 | 82 | 39 | 4566 |
| voltage-gated ion channel activity | 7.0e-06 | 8 | 9.7 | 82 | 58 | 4566 |
| amine/polyamine transport | 1.1e-05 | 4 | 4.8 | 82 | 9 | 4566 |
| behavior | 1.1e-05 | 5 | 6.0 | 82 | 18 | 4566 |
| amino acid transporter activity | 1.5e-05 | 5 | 6.0 | 82 | 19 | 4566 |
| gamma-aminobutyric acid signaling pathway | 1.8e-05 | 4 | 4.8 | 82 | 10 | 4566 |
| negative regulation of adenylate cyclase activity | 1.8e-05 | 4 | 4.8 | 82 | 10 | 4566 |
| dopamine receptor activity | 2.2e-05 | 3 | 3.6 | 82 | 4 | 4566 |
| chloride transport | 6.6e-05 | 5 | 6.0 | 82 | 25 | 4566 |
| monovalent inorganic cation transport | 7.1e-05 | 8 | 9.7 | 82 | 79 | 4566 |
| actin filament-based movement | 7.5e-05 | 6 | 7.3 | 82 | 41 | 4566 |
| indolalkylamine metabolism | 0.0001 | 3 | 3.6 | 82 | 6 | 4566 |
| serotonin metabolism | 0.0001 | 3 | 3.6 | 82 | 6 | 4566 |
| serotonin receptor activity | 0.0001 | 3 | 3.6 | 82 | 6 | 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 438 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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