Table V.
Non-coding genes found differently methylated and associated with the tumorigenesis and/or cancer progression.
| Gene | DMR length | Num. CpG | CpG observed/CpG expected | P-value | MAT score | DMR position | Note |
|---|---|---|---|---|---|---|---|
| ATXN8OS | 2110 | 11 | 0.18 | 3.69E-04 | −10.15 | Gene body | Antisense RNA. Implicated in localization and activity of splicing factors |
| C1RL-AS1 | 3076 | 34 | 0.16 | 5.16E-04 | 10.24 | Gene body | Antisense RNA |
| CACNA1C-AS1 | 2453 | 117 | 0.58 | 1.66E-04 | −11.01 | Promoter region | Antisense RNA |
| CECR5-AS1 | 2036 | 26 | 0.24 | 3.87E-04 | 10.50 | Gene body | Antisense RNA |
| EPHA1-AS1 | 985 | 9 | 0.25 | 5.16E-04 | 10.21 | Gene body | Antisense RNA. Diseases associated with EPHA1-AS1 include Alzheimer's disease |
| FAM41C | 2699 | 53 | 0.36 | 1.47E-04 | −11.08 | Gene body | lncRNA class |
| FAM66D | 2279 | 42 | 0.41 | 2.58E-04 | 11.10 | Gene body | Antisense RNA |
| GATA6-AS1 | 2895 | 188 | 0.88 | 4.06E-04 | −10.07 | Promoter region | Antisense RNA |
| HOTTIP | 1434 | 20 | 0.39 | 2.21E-04 | −10.65 | Promoter region | Antisense RNA. Role in cancer (48) |
| HOXB-AS3 | 4175 | 222 | 0.61 | 1.66E-04 | −10.87 | Gene body | Antisense RNA. Diseases associated with HOXB-AS3 include obesity |
| LINC00029 | 2382 | 105 | 0.47 | 7.01E-04 | −9.49 | Gene body | Long intergenic non-protein coding |
| LINC00174 | 1674 | 34 | 0.42 | 4.24E-04 | −10.00 | Gene body | Long intergenic non-protein coding |
| LINC00261 | 1054 | 9 | 0.19 | 3.69E-05 | −13.06 | Gene body | Long intergenic non-protein coding |
| LINC00261 | 2135 | 104 | 0.66 | 7.01E-04 | −9.41 | Gene body | Long intergenic non-protein coding |
| LINC00277 | 3609 | 52 | 0.28 | 2.58E-04 | 11.03 | Promoter region | Long intergenic non-protein coding |
| LINC00319 | 3036 | 124 | 0.42 | 9.22E-05 | −12.22 | Promoter region | Long intergenic non-protein coding |
| LINC00539 | 2157 | 77 | 0.59 | 3.32E-04 | −10.20 | Gene body | Long intergenic non-protein coding |
| LINC00539 | 964 | 14 | 0.22 | 3.87E-04 | 10.53 | Gene body | Long intergenic non-protein coding |
| LINC00628 | 2253 | 33 | 0.24 | 5.53E-05 | 13.09 | CDS end of the gene | Long intergenic non-protein coding |
| LINC00637 | 2399 | 213 | 0.94 | 7.56E-04 | −9.35 | Gene body | Long intergenic non-protein coding |
| LINC00643 | 679 | 5 | 0.24 | 5.53E-05 | 13.24 | Gene body | Long intergenic non-protein coding |
| LINC00663 | 379 | 7 | 0.45 | 1.84E-05 | −13.75 | CDS end of the gene | Long intergenic non-protein coding |
| LINC00857 | 3166 | 179 | 0.67 | 7.01E-04 | −9.42 | Gene body | Long intergenic non-protein coding |
| LINC00957 | 2385 | 142 | 0.55 | 1.47E-04 | −11.09 | Gene body | Long intergenic non-protein coding |
| LINC00999 | 2549 | 109 | 0.41 | 1.84E-05 | −14.02 | Gene body | Long intergenic non-protein coding |
| LINC01002 | 2343 | 114 | 0.46 | 9.22E-05 | −12.24 | Gene body | Long intergenic non-protein coding |
| LINC01056 | 663 | 45 | 0.68 | 4.06E-04 | −10.10 | Gene body | Long intergenic non-protein coding |
| MALAT1 | 2205 | 73 | 0.51 | 1.84E-05 | 16.14 | CDS end of the gene | IncRNA. Role in cancer (47) |
| MIR149 | 3820 | 308 | 0.64 | 1.29E-04 | −11.22 | Gene body | miRNA. Role in cancer (49) |
| MIR3939 | 1740 | 10 | 0.15 | 4.98E-04 | 10.26 | CDS end of the gene | miRNA |
| MIR4635 | 2310 | 128 | 0.55 | 1.29E-04 | −11.27 | Gene body | miRNA |
| MIR4683 | 2321 | 281 | 0.96 | 4.06E-04 | −10.05 | Promoter region | miRNA |
| MIR5091 | 1362 | 106 | 0.86 | 1.11E-04 | −11.65 | Gene body | miRNA |
| MIR5187 | 2601 | 31 | 0.17 | 4.42E-04 | 10.39 | Gene body | miRNA |
| MIR675 | 3245 | 150 | 0.51 | 7.37E-05 | −12.38 | Promoter region | miRNA. Role in cancer (50) |
| MRPL23-AS1 | 2003 | 85 | 0.42 | 7.74E-04 | −9.28 | Promoter region | Antisense RNA |
| MYLK-AS1 | 2516 | 138 | 0.70 | 1.84E-05 | −14.32 | Gene body | Antisense RNA |
| RNF219-AS1 | 2572 | 108 | 0.64 | 3.69E-04 | −10.14 | Gene body | Antisense RNA. SNP associated with the regulation of blood pressure and alcohol consuming |
| SNHG18 | 2171 | 182 | 0.75 | 7.74E-04 | −9.26 | Gene body | Small nucleolar RNA |
| SNORA51 | 2385 | 52 | 0.33 | 6.82E-04 | 9.97 | Gene body | Small nucleolar RNA |
| SNORD52 | 2303 | 69 | 0.50 | 2.77E-04 | −10.33 | Gene body | Small nucleolar RNA |
| SPANXA2-OT1 | 2060 | 15 | 0.20 | 5.16E-04 | 10.21 | Gene body | Antisense RNA |
| SPATA41 | 2102 | 13 | 0.19 | 1.66E-04 | −11.01 | Promoter region | lncRNA class |
| TOB1-AS1 | 2251 | 209 | 0.83 | 7.74E-04 | −9.31 | Gene body | Antisense RNA |
| TTC28-AS1 | 2534 | 47 | 0.45 | 2.40E-04 | 11.15 | Gene body | Antisense RNA. Associated with obesity |
| ZNRD1-AS1 | 1415 | 8 | 0.11 | 7.74E-04 | 9.83 | Gene body | Antisense RNA. Associated with Graves' disease and systemic lupus erythematosus |