MOESM3 of MYC deregulates TET1 and TET2 expression to control global DNA (hydroxy)methylation and gene expression to maintain a neoplastic phenotype in T-ALL

Additional file 3. Detailed lists of genes used in DMR, hDMR, DEG, GSEA, and intersection analysis. List of genes associated with DMRs and hDMRs in mouse T-ALL cells (EµSRα-tTAα;tet-o-MYC) (6780) before and upon 2 days of MYC inactivation (+DOX). List of genes associated with DMRs and hDMRs, as well as DEGs and intersection analysis in human T-ALL (CCRF-CEM) upon TET1 KD. List of genes associated with DMRs and hDMRs, as well as DEGs and intersection analysis in human T-ALL (CCRF-CEM) upon ectopic TET2 expression. List of genes from GSEA analysis in human T-ALL (CCRF-CEM) upon TET1 KD. List of genes used in GSEA analysis in human T-ALL (CCRF-CEM) upon ectopic TET2 expression. Gene lists used for intersection analysis of MYC target genes, TET1 DEGs, and TET2 DEGs.

附加文件3：用于差异甲基化区域（Differentially Methylated Regions, DMR）、高置信度差异甲基化区域（high-confidence Differentially Methylated Regions, hDMR）、差异表达基因（Differentially Expressed Gene, DEG）、基因集富集分析（Gene Set Enrichment Analysis, GSEA）以及交集分析的基因详细列表。具体包括：小鼠T细胞急性淋巴细胞白血病（T-cell Acute Lymphoblastic Leukemia, T-ALL）细胞（EµSRα-tTAα;tet-o-MYC）中，关联于DMR和hDMR的基因列表（共6780个），涵盖MYC未灭活状态以及经2天MYC灭活处理（+DOX）后的样本；人源T-ALL（CCRF-CEM细胞系）中，关联于DMR、hDMR的基因列表，以及TET1敲低（Knockdown, KD）后的DEG与交集分析相关基因列表；人源T-ALL（CCRF-CEM细胞系）中，关联于DMR、hDMR的基因列表，以及异位表达TET2后的DEG与交集分析相关基因列表；人源T-ALL（CCRF-CEM细胞系）经TET1敲低后，GSEA分析所涉及的基因列表；人源T-ALL（CCRF-CEM细胞系）经异位TET2表达后，GSEA分析所使用的基因列表；以及用于MYC靶基因、TET1敲低差异表达基因与TET2敲低差异表达基因三者交集分析的基因列表。