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Table 2 24 loci identified by MLDA, PAM and SAM as differentially methylated candidates in the comparison between A2780 cisplatin sensitive and cisplatin multiple-selected resistant cell lines.

From: Methylation Linear Discriminant Analysis (MLDA) for identifying differentially methylated CpG islands

microarray ID status validation MLDA rank* PAM rank SAM rank CGI*** gene symbol** GenBank Accession Chromosome
66_G_6 hypermethylated Yes 1 1 1 Yes    
121_D_9 hypermethylated Yes 2 5 6 Yes CRABP1 NM_004378 15
39_E_1 hypermethylated ND 3 2 2 No    
122_D_9 hypermethylated No 4 11 11 Yes SOX12 NM_006943 20
123_D_9 hypermethylated No 5 10 10 Yes SOX12 NM_006943 20
51_H_8 hypermethylated Yes 6 18 19 No FEZF2 NM_018008 3
58_A_1 hypermethylated ND 7 22 22 Yes    
80_H_5 hypermethylated ND 8 14 16 No    
21_A_11 hypermethylated Yes 9 17 18 Yes NTN4 NM_021229 12
38_D_7 hypermethylated Yes 11 23 24 Yes AGBL2 NM_024783 11
40_E_1 hypermethylated ND 12 19 17 No    
18_A_7 hypermethylated ND 13 20 20 No EDIL3 NM_005711 5
55_F_8 hypermethylated Yes 14 9 9 Yes BC127881 BC127881 7
122_B_1 hypermethylated ND 15 16 14 No    
109_A_6 hypermethylated No 18 12 13 Yes    
41_D_9 hypermethylated Yes 22 8 8 Yes WNT1 NM_005430 12
42_D_9 hypermethylated ND 23 4 4 No    
119_A_6 hypermethylated Yes 24 6 5 Yes NR2E1 NM_003269 6
63_A_8 hypermethylated ND 26 15 15 No    
6_D_4 hypermethylated Yes 31 3 3 Yes LMX1A NM_177398 1
17_H_9 hypermethylated Yes 34 13 12 Yes HRASLS3 NM_006290 6
5_D_4 hypermethylated Yes 35 7 7 Yes LMX1A NM_177398 1
24_D_3 hypermethylated Yes 75 24 23 Yes SP5 NM_001003845 2
122_G_1 hypermethylated ND 101 21 21 Yes    
  1. ND: not done. Yes: validated. No: not validated
  2. MLDA rank*: the rank of standardised residuals to the robust regression line constructed by the averaged sensitive scores against averaged resistant scores
  3. Gene symbol**: only the gene of which transcription start site (TSS) is within 5 kb span of the loci
  4. CGI***: CpG island defined by Gardiner-Garden and Frommer [31].