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Table 6 DNA methylation of TSGs in the Relapse sample

From: Enhancing cancer clonality analysis with integrative genomics

Target ID Avg-Beta Gene Ensembl Gene ID RNA Read Count Classification Regulatory Feature Relation to CpG Island
cg27549619 0.443731 AXIN1 ENSG00000103126 0 TSG Promoter Associated Island
cg02086790 0.4921295 AXIN1 ENSG00000103126 0 TSG Promoter Associated Island
cg26370022 0.6747859 BRCA1 ENSG00000012048 0 TSG Promoter Associated Island
cg24900425 0.8910863 BRCA1 ENSG00000012048 0 TSG Promoter Associated Island
cg11529738 0.7637555 BRCA1 ENSG00000012048 0 TSG Promoter Associated Island
cg13601799 0.467826 CDKN2A ENSG00000147889 38 TSG Promoter Associated Island
cg00976692 0.293402 MEN1 ENSG00000133895 0 TSG Promoter Associated Island
cg14803009 0.4267139 MSH2 ENSG00000095002 0 TSG Promoter Associated Island
cg22073802 0.2875548 PTCH1 ENSG00000185920 23 TSG Promoter Associated Island
cg22866426 0.5251715 RUNX1 ENSG00000159216 0 TSG Promoter Associated Island
cg17339910 0.399428 RUNX1 ENSG00000159216 0 TSG Promoter Associated Island
cg04004558 0.2809271 SOCS1 ENSG00000185338 0 TSG Promoter Associated Island
cg27003951 0.2598022 SOCS1 ENSG00000185338 0 TSG Promoter Associated Island
  1. Listed are the DNA methylation of tumor suppressor genes (TSGs) passing iCloneViz filtering criteria from ~485,000 possible candidates, for the Relapse sample. Filtering criteria and integration with RNA-seq is the same as is reported for the Presentation sample (Table 5).