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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.