Skip to main content

Advertisement

Table 5 SAFE analysis of the KEGG pathway database

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

αPathway (UP) βSize δq-value εGO Term
Disease
KEGG:05014 92/54 0.1831 Amyotrophic lateral sclerosis
DNA Metabolism
KEGG:03030 35/36 0.2048 DNA replication
KEGG:03410 46/34 0.0003 Base excision repair
KEGG:03420 42/44 0.0758 Nucleotide excision repair
KEGG:03430 36/23 0.1367 Mismatch repair
KEGG:03440 13/28 0.0003 Homologous recombination
RNA Metabolism
KEGG:03018 55/54 0.0007 RNA degradation
KEGG:03020 16/29 0.0296 RNA polymerase
KEGG:00970 18/63 0.005 Aminoacyl-tRNA biosynthesis
Mitochondrial Function
KEGG:00062 5/8 0.0381 Fatty acid elongation in mitochondria
KEGG:00071 17/44 0.1726 Fatty acid metabolism
Amino acid Metabolism
KEGG:00270 22/36 0.0261 Cysteine and methionine metabolism
KEGG:00280 24/44 0.025 Valine leucine and isoleucine degradation
KEGG:00290 7/11 0.0072 Valine leucine and isoleucine biosynthesis
KEGG:00310 24/44 0.0385 Lysine degradation
KEGG:00450 13/26 0.2048 Selenoamino acid metabolism
Carbohydrate Metabolism  
KEGG:00632 8/33 0.0003 Benzoate degradation via CoA ligation
KEGG:00640 18/32 0.0381 Propanoate metabolism
KEGG:00650 13/30 0.0003 Butanoate metabolism
KEGG:00670 8/18 0.0177 One carbon pool by folate
KEGG:00903 7/32 0.0425 Limonene and pinene degradation
KEGG:00510 31/49 0.2155 N-Glycan biosynthesis
Cell-Cell Communication   
KEGG:04330 35/47 0.2288 Notch signaling pathway
Chaperone-dependent protein transport
KEGG:03060 13/23 0.0573 Protein export
Neuromuscular
KEGG:04260 46/77 0.1493 Cardiac muscle contraction
UPS
KEGG:03050 42/45 0.032 Proteasome
KEGG:04120 93/138 0.032 Ubiquitin mediated proteolysis
  1. αKEGG pathway identities and βnumber of probes of the array mapping to the pathway per number of unique genes representing the pathway is shown. FDR (q-value) at significance level p < 0.25 (25%) was determined by bootstrapping following SAFE analysis. εThe table shows listing of the 27 significant KEGG pathway categories. UPS stands for the ubiquitin/proteasome system.