Table 2 |
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|
Gene Ontology terms enriched in genes with CNS specific AS and transcript levels |
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|
Function/pathway |
GO term |
CNS count |
CNS proportion |
Total count |
Total proportion |
FDR |
|
|
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|
GO term enrichment in genes with CNS tissue specific AS levels |
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|
Signaling pathways |
Cell-cell signaling |
7 |
0.065 |
17 |
0.011 |
0.02820 |
|
Rho guanyl-nucleotide exchange factor activity |
5 |
0.047 |
8 |
0.005 |
0.02820 |
|
|
Guanyl-nucleotide exchange factor activity |
7 |
0.065 |
20 |
0.013 |
0.04400 |
|
|
Rho GTPase binding |
3 |
0.028 |
3 |
0.002 |
0.04400 |
|
|
GTPase regulator activity |
11 |
0.103 |
54 |
0.035 |
0.08280 |
|
|
Vesicular transport |
Vesicle-mediated transport |
13 |
0.121 |
64 |
0.042 |
0.04400 |
|
Cytoskeleton |
Cytoskeletal protein binding |
11 |
0.103 |
52 |
0.034 |
0.06720 |
|
Actin binding |
8 |
0.075 |
32 |
0.021 |
0.09650 |
|
|
Nervous system |
Transmission of nerve impulse |
5 |
0.047 |
13 |
0.008 |
0.09770 |
|
Neurophysiologic process |
6 |
0.056 |
20 |
0.013 |
0.10800 |
|
|
Other functions |
Protein binding |
49 |
0.458 |
449 |
0.291 |
0.03520 |
|
Plasma membrane |
17 |
0.159 |
118 |
0.077 |
0.10800 |
|
|
GO term enrichment in genes with CNS tissue specific transcript levels |
||||||
|
Signaling pathways |
Cell-cell signaling |
12 |
0.085 |
34 |
0.015 |
0.00022 |
|
Cell communication |
35 |
0.246 |
334 |
0.143 |
0.03030 |
|
|
Insulin secretion |
3 |
0.021 |
5 |
0.002 |
0.08710 |
|
|
Peptide hormone secretion |
3 |
0.021 |
5 |
0.002 |
0.08710 |
|
|
Ionotropic glutamate receptor activity |
2 |
0.014 |
2 |
0.001 |
0.09940 |
|
|
G-protein-coupled receptor binding |
2 |
0.014 |
2 |
0.001 |
0.09940 |
|
|
Glutamate-gated ion channel activity |
2 |
0.014 |
2 |
0.001 |
0.09940 |
|
|
Excitatory extracellular ligand-gated ion channel activity |
3 |
0.021 |
6 |
0.003 |
0.09940 |
|
|
Cyclic-nucleotide-mediated signaling |
3 |
0.021 |
7 |
0.003 |
0.13900 |
|
|
cAMP-mediated signaling |
3 |
0.021 |
7 |
0.003 |
0.13900 |
|
|
G-protein coupled receptor protein signaling pathway |
9 |
0.063 |
58 |
0.025 |
0.14800 |
|
|
Secretory pathways |
Secretory pathway |
10 |
0.070 |
45 |
0.019 |
0.02340 |
|
Secretion |
10 |
0.070 |
51 |
0.022 |
0.04610 |
|
|
Regulated secretory pathway |
4 |
0.028 |
11 |
0.005 |
0.09940 |
|
|
Cytoskeleton |
Microtubule |
8 |
0.056 |
40 |
0.017 |
0.08980 |
|
microtubule associated complex |
5 |
0.035 |
19 |
0.008 |
0.10800 |
|
|
Cytoskeleton |
16 |
0.113 |
136 |
0.058 |
0.14800 |
|
|
Microtubule-based process |
7 |
0.049 |
39 |
0.017 |
0.14800 |
|
|
Nervous system |
Transmission of nerve impulse |
9 |
0.063 |
26 |
0.011 |
0.00456 |
|
Postsynaptic membrane |
7 |
0.049 |
16 |
0.007 |
0.00512 |
|
|
Synaptic transmission |
8 |
0.056 |
25 |
0.011 |
0.01100 |
|
|
Nervous system development |
14 |
0.099 |
75 |
0.032 |
0.01500 |
|
|
Synaptosome |
5 |
0.035 |
12 |
0.005 |
0.03030 |
|
|
Neurophysiologic process |
9 |
0.063 |
43 |
0.018 |
0.04820 |
|
|
Neurogenesis |
9 |
0.063 |
46 |
0.020 |
0.07040 |
|
|
Neurotransmitter secretion |
4 |
0.028 |
10 |
0.004 |
0.08710 |
|
|
Neuron development |
7 |
0.049 |
33 |
0.014 |
0.09940 |
|
|
Neuron differentiation |
7 |
0.049 |
36 |
0.015 |
0.11400 |
|
|
Regulation of neurotransmitter levels |
4 |
0.028 |
14 |
0.006 |
0.14800 |
|
|
Other functions |
Membrane fraction |
11 |
0.077 |
54 |
0.023 |
0.02340 |
|
System development |
15 |
0.106 |
79 |
0.034 |
0.01020 |
|
|
Localization |
44 |
0.310 |
487 |
0.209 |
0.09940 |
|
|
|
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|
Gene Ontology (GO) terms significantly enriched in the top approximately 100 genes with the most significant central nervous system (CNS) tissue specific alternative splicing (AS) levels, and the top approximately 200 genes with the most CNS specific transcript levels are shown. CNS counts (number of times a GO term appears in the CNS tissue regulated group) and total counts (number of times a GO term appears in the total group of microarray-profiled genes with sufficient expression across 15 tissues) are shown. Proportions in each group are also shown. FDR denotes the false discovery rate of a GO term. This value represents the expected proportion of false positive GO terms out of all positive GO terms. Only GO terms with a FDR below 0.15 are shown. |
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|
Fagnani et al. Genome Biology 2007 8:R108 doi:10.1186/gb-2007-8-6-r108 |
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