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Table 11 Induced ESR gene set: comparison between NEAT and LA+S (KEGG pathways)

From: NEAT: an efficient network enrichment analysis test

   μ 0 log10 (p-value)
  KEGG pathway NEAT LA+S NEAT LA+S
1 Starch and sucrose metabolism 394.2 400.6 <-300 <-300
2 Butanoate metabolism 84.8 98.0 –202.8 <-300
3 Pentose and glucuronate interconversions 110.7 127.5 –119.9 –185.7
4 beta-Alanine metabolism 104.0 122.9 –118.0 –209.8
5 Glycolysis/Gluconeogenesis 616.3 618.7 –116.5 –149.3
6 Fructose and mannose metabolism 200.0 206.2 –106.7 –160.7
7 Galactose metabolism 173.9 193.2 –104.5 –126.4
8 Glycerolipid metabolism 172.1 193.2 –72.7 –103.2
9 Longevity regulating pathway - multiple species 544.0 508.2 –70.6 –79.1
10 Pentose phosphate pathway 288.0 284.2 –64.0 –105.8
11 Amino sugar and nucleotide sugar metabolism 264.2 277.6 –63.4 –66.7
12 Peroxisome 313.3 332.9 –61.2 –55.8
13 Glutathione metabolism 204.8 221.6 –59.9 –77.8
14 Taurine and hypotaurine metabolism 24.3 28.5 –59.4 –92.8
15 Tyrosine metabolism 163.5 169.9 –51.8 –62.6
16 Tryptophan metabolism 113.3 130.9 –48.2 –59.4
17 Valine, leucine and isoleucine degradation 107.5 124.8 –45.3 –56.8
18 Other glycan degradation 11.7 12.9 –44.2 –66.3
19 Regulation of autophagy 126.7 135.2 –43.3 –45.5
20 Pyruvate metabolism 355.9 388.8 –42.8 –41.6
21 Alanine, aspartate and glutamate metabolism 262.2 284.5 –38.0 –36.7
22 Fatty acid degradation 215.0 225.0 –37.2 –43.7
23 Citrate cycle (TCA cycle) 267.3 299.5 –35.6 –32.9
24 Insulin resistance 172.8 176.5 –30.1 –30.4
25 Histidine metabolism 127.4 147.8 –28.8 –25.8
26 Arachidonic acid metabolism 36.7 44.1 –28.1 –40.6
27 Glyoxylate and dicarboxylate metabolism 201.6 224.8 –27.3 –23.7
28 Sphingolipid metabolism 103.6 116.3 –27.3 –26.2
29 Arginine and proline metabolism 154.3 180.2 –27.0 –24.8
30 Lysine degradation 150.4 160.2 –26.6 –31.5
31 Methane metabolism 254.2 262.7 –26.2 –23.7
32 Phenylalanine metabolism 71.4 81.5 –25.0 –26.4
33 Glycerophospholipid metabolism 270.9 285.1 –24.5 –22.3
34 Protein processing in endoplasmic reticulum 866.0 857.1 –17.4 –20.7
35 Ubiquinone and other terpenoid-quinone biosynthesis 41.8 47.1 –13.1 –12.3
36 Propanoate metabolism 107.3 122.9 –12.9 –9.9
37 alpha-Linolenic acid metabolism 27.1 30.5 –11.7 –11.2
38 Fatty acid elongation 75.3 76.1 –10.8 –12.9
39 Glycine, serine and threonine metabolism 264.3 281.1 –6.7 –3.5
40 Nicotinate and nicotinamide metabolism 99.8 111.9 –6.7 –4.7
41 Nitrogen metabolism 52.8 60.7 –5.4 –4.0
42 Thiamine metabolism 32.9 36.8 –4.1 –3.2
43 Selenocompound metabolism 89.3 97.0 –3.2 –1.9
44 Cysteine and methionine metabolism 285.3 310.6 –2.8 –1.0
45 Arginine biosynthesis 134.0 154.2 –2.4 –0.6
46 Sulfur metabolism 105.3 121.9 –2.2 –0.5
47 Biosynthesis of unsaturated fatty acids 103.9 102.1 –2.5 –3.1
48 Regulation of mitophagy - yeast 554.4 510.4 –1.6 –5.1
  1. The table reports the gene sets that are found to be over-enriched (α=1 %) by at least one of the two methods. μ 0 denotes the expected value of N AB in absence of enrichment. The last two columns report log 10 p-values for the proposed NEAT and the LA+S test of [19], respectively