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Table 2 Gene Ontology terms enriched in genes with CNS specific AS and transcript levels

From: Functional coordination of alternative splicing in the mammalian central nervous system

GO term enrichment in genes with CNS tissue specific AS levels
Function/pathway GO term CNS count CNS proportion Total count Total proportion FDR
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
  1. 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.