Rank Gender C1 Gender C2 P53 Diabetes
1 chrY gnf female genes calcineurinpathway p53 down
  (0.987, 0.031) (0.995, 0) (0.895, 0.12) (0.812, 0.324)
2 chrYp11 testis genes from human mitodb 6 map00251 gluta-
  (0.987, 0.031) xhx and netaffx 2002(0.893, 0.16) mate metabolism
    (0.987, 0.062)   (0.801, 0.353)
3 chrYq11 xinact merged mitochondr(0.887, 0.16) vippathway
  (0.987, 0.062) (0.92, 0.156)   (0.787, 0.353)
4 chrXp22 prolif genes bcl2family and reg xinact merged
  (0.908, 0.125) (0.916, 0.156) network(0.871, 0.12) (0.775, 0.324)
5 chrX st dictyostelium disco- ceramidepathway p53 signalling
  (0.896, 0.156) ideum camp chemotaxis (0.864, 0.1) (0.765, 0.324)
    pathway(0.916, 0.156)    
6 chrXp11 cell proliferation badpathway(0.861, 0.1) mcalpainpathway
  (0.837, 0.312) (0.916, 0.094)   (0.763, 0.353)
7 chr3q13 sig chemotaxis drug resistance amipathway
  (0.791, 0.188) (0.915, 0.094) and metabolism (0.759, 0.235)
      (0.859, 0.12)  
8 chr12q14 map00252 alanine and p53pathway cskpathway
  (0.777, 0.344) aspartate metabolism (0.857, 0.16) (0.759, 0.235)
    (0.903, 0.281)    
9 chr12p12 map00910 nitrogen st fas signaling map03020 rna poly-
  (0.770, 0.312) metabolism(0.903, 0.281) pathway(0.844, 0.22) merase(0.749, 0.353)
10 chr9q31 rap down(0.903, 0.281) ca nf at signalling map00230 purine
  (0.763, 0.375)   (0.836, 0.12) metabolism
        (0.748, 0.324)
Rank Leukemia Lung Boston Lung Michigan  
1 chr14q23 nfkb reduced st fas signaling  
  (1, 0) (0.79, 0.323) pathway(0.808, 0.291)  
2 chr6q22 nfkb induced dna damage signal-  
  (0.998, 0.083) (0.77, 0.258) ling(0.805, 0.279)  
3 chr14q11 map00640 propanoate crebpathway  
  (0.998, 0.062) metabolism(0.762, 0.258) (0.801, 0.291)  
4 chr17q25 map00340 histidine il17pathway  
  (0.998, 0.083) metabolism(0.745, 0.306) (0.77, 0.326)  
5 chr8p21 hemo tf list jp st integrin signaling  
  (0.996, 0.042) (0.733, 0.323) pathway(0.765, 0.326)  
6 chr6q21 map00620 pyruvate map00240 pyrimidine  
  (0.996, 0.021) metabolism metabolism  
    (0.732, 0.371) (0.76, 0.314)  
7 chrXq28 cr immune function cr immune function  
  (0.995, 0.042) (0.72, 0.355) (0.751, 0.302)  
8 chr3q25 map00970 aminoacyl trna st ga12 pathway  
  (0.993, 0) biosynthesis(0.71, 0.387) (0.747, 0.349)  
9 chr11q23 proteasomepathway tgf beta signaling  
  (0.992, 0) (0.707, 0.306) pathway(0.743, 0.302)  
10 chr11 map00380 tryptophan raccycdpathway  
  (0.992, 0) metabolism(0.705, 0.355) (0.742, 0.291)  
Table 4: Results of real examples using AUCcv. Top ten gene sets selected by the linear combination coefficients for each data set. AUC and classification error rates via 5-fold cross-validation are shown in parentheses.