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Table 4 SAFE gene ontology pathways related to Cellular Components affected in peripheral blood lymphocytes from ALS patients

From: Microarray analysis of peripheral blood lymphocytes from ALS patients and the SAFE detection of the KEGG ALS pathway

αPathway βSizes δq-value εGO Term
Cytoskeleton
GO:0005868 6/10 0.001 cytoplasmic dynein complex
GO:0005885 8/7 0.0322 Arp2/3 protein complex
ER and Golgi
GO:0030130 9/9 0.0001 clathrin coat of trans-Golgi network vesicle
GO:0008250 8/10 0.0001 oligosaccharyltransferase complex
GO:0030660 23/6 0.0001 Golgi-associated vesicle membrane
GO:0030134 7/3 0.0057 ER to Golgi transport vesicle
GO:0005791 12/20 0.0613 rough endoplasmic reticulum
GO:0030131 18/19 0.024 clathrin adaptor complex
GO:0030119 18/5 0.024 AP-type membrane coat adaptor complex
GO:0001669 8/34 0.2372 acrosomal vesicle
GO:0030127 6/8 0.0122 COPII vesicle coat
GO:0030126 8/12 0.003 COPI vesicle coat
Mitochondria
GO:0005758 22/30 0.0004 mitochondrial intermembrane space
GO:0005763 20/18 0.0002 mitochondrial small ribosomal subunit
GO:0000276 7/8 0.0006 mitochondrial proton-transporting ATP synthase complex coupling factor F(o)
GO:0005747 44/44 0.0126 mitochondrial respiratory chain complex I
GO:0005742 6/6 0.024 mitochondrial outer membrane translocase complex
Motor Neuron
GO:0031594 8/25 0.028 neuromuscular junction
GO:0030424 21/133 0.1525 axon
Nucleus
GO:0005680 12/24 0.0167 anaphase-promoting complex
GO:0000777 18/61 0.1854 condensed chromosome kinetochore
GO:0000779 20/4 0.1989 condensed chromosome centromeric region
GO:0000783 9/9 0.1197 nuclear telomere cap complex
GO:0005643 51/67 0.2084 nuclear pore
GO:0005637 10/28 0.1318 nuclear inner membrane
Transcriptional Complexes  
GO:0016591 43/6 0.001 DNA-directed RNA polymerase II holoenzyme
GO:0000178 11/9 0.0025 exosome (RNase complex)
GO:0016580 10/8 0.0712 sin3 complex
GO:0005669 11/20 0.1817 transcription factor TFIID complex
UPS
GO:0005832 5/7 0.0001 chaperonin-containing T-complex
GO:0000151 57/57 0.0003 ubiquitin ligase complex
GO:0000152 14/2 0.024 nuclear ubiquitin ligase complex
GO:0031461 10/8 0.0012 cullin-RING ubiquitin ligase complex
GO:0005839 20/14 0.0167 proteasome core complex
GO:0016272 8/10 0.0402 prefoldin complex
GO:0008180 8/10 0.003 signalosome
  1. αGene ontology (GO) pathway identities for cellular components and βnumber of probes on the 4 × 44K human genome array per GO group of directly associated proteins is shown (note: one gene may be represented by different or redundant probes on the array). γFDR (q-value) at significance level q < 0.25 (25%) was determined by bootstrapping following SAFE analysis. δThe table shows partial listing of representative significant εGO categories associated with cellular components (36 among 83). UPS stands for the ubiquitin/proteasome system and ER for endoplasmic reticulum.