. 2014 Dec 24;43(2):760–774. doi: 10.1093/nar/gku1340

Table 1. Transcriptional modulators differentially methylated during thymic differentiation.

Differentiation step	Gene (official gene symbol)
Step 1	BCL11B^a, FOXK1^a, HOXA6^a, LHX6, PRDM8^a, TFCP2 and ZNF135^a.
Step 2	AHRR, BCL11B, CBFA2T3, HDAC4, IKZF1, JMJD6, MSI2, RAG1, RORC, SMARCA4, SMARCB1, TBL1XR1, TCF7, TNRC6B and TULP4.
Step 3	AFF3, CDC73, RCOR3, VOPP1, ZNF691^a and ZNF707^a.
Step 4a and 4b	ACTB, AIRE, BACH2, BCL11B, EIF2C2, ETS1, HIPK2, LBH, MAFG^a, PASK, RAG1^a, RORC, SATB1, SMYD1, STAT1, TNRC6B, TOX2, ZFP36L1, ZNF217, ZNF238 and APBB1.
Step 4a only	MYST4, PRDM1, SP3, SP4, ATF7IP, RERE, ASH1L, CREM, CBFA2T3^a, FOXK1, LEF1, SSBP2, ZBTB7B, ASCC1, ASXL1, CTNND1^a, DNMT3A, DPF2, LMO2^a, SSBP2, STOX2, TOX, ZCCHC11 and ZNF589.
Step 4b only	CBL, KLF13, SMAD3, FOXP1, NFATC1, RUNX3, SND1, TRERF1, TBL1XR1, SKI, ZHX2, BCL9L, C14orf43, PHRF1 and PNRC1.

^aDe novo-methylated genes.