| 4851 | NOTCH1 | Notch homolog 1, translocation-associated (Drosophila) | TAN1,hN1 | |
| 6774 | STAT3 | signal transducer and activator of transcription 3 (acute-phase response factor) | APRF,FLJ20882,MGC16063 | |
| 28996 | HIPK2 | homeodomain interacting protein kinase 2 | PRO0593 | |
| 5080 | PAX6 | paired box gene 6 (aniridia, keratitis) | AN,AN2,D11S812E,MGC17209,MGDA,WAGR | |
| 1488 | CTBP2 | C-terminal binding protein 2 | - | |
| 23013 | SPEN | spen homolog, transcriptional regulator (Drosophila) | KIAA0929,MINT,RP1-134O19.1,SHARP | |
| 6925 | TCF4 | transcription factor 4 | E2-2,ITF2,MGC149723,MGC149724,SEF2,SEF2-1,SEF2-1A,SEF2-1B | |
| 7030 | TFE3 | transcription factor binding to IGHM enhancer 3 | RCCP2,TFEA | |
| 9734 | HDAC9 | histone deacetylase 9 | DKFZp779K1053,HD7,HDAC,HDAC7,HDAC7B,HDAC9B,HDAC9FL,HDRP,KIAA0744,MITR | |
| 6776 | STAT5A | signal transducer and activator of transcription 5A | MGF,STAT5 | |
| 9444 | QKI | quaking homolog, KH domain RNA binding (mouse) | DKFZp586I0923,Hqk,QK,QK3 | |
| 9261 | MAPKAPK2 | mitogen-activated protein kinase-activated protein kinase 2 | - | |
| 5411 | PNN | pinin, desmosome associated protein | DRS,SDK3,memA,pinin | |
| 7041 | TGFB1I1 | transforming growth factor beta 1 induced transcript 1 | ARA55,HIC-5,HIC5,TSC-5 | |
| 3728 | JUP | junction plakoglobin | CTNNG,DP3,DPIII,PDGB,PKGB | |
| 865 | CBFB | core-binding factor, beta subunit | PEBP2B | |
| 10521 | DDX17 | DEAD (Asp-Glu-Ala-Asp) box polypeptide 17 | DKFZp761H2016,P72,RH70 | |
| 6657 | SOX2 | SRY (sex determining region Y)-box 2 | ANOP3,MCOPS3,MGC2413 | |
| 6929 | TCF3 | transcription factor 3 (E2A immunoglobulin enhancer binding factors E12/E47) | E2A,ITF1,MGC129647,MGC129648 | |
| 10856 | RUVBL2 | RuvB-like 2 (E. coli) | CGI-46,ECP51,RVB2,TIP48,TIP49B | |
| 2908 | NR3C1 | nuclear receptor subfamily 3, group C, member 1 (glucocorticoid receptor) | GCCR,GCR,GR,GRL | |
| 10628 | TXNIP | thioredoxin interacting protein | EST01027,HHCPA78,THIF,VDUP1 | |
| 29994 | BAZ2B | bromodomain adjacent to zinc finger domain, 2B | DKFZP434H071,DKFZp762I0516,FLJ45644,WALp4 | |
| 5747 | PTK2 | PTK2 protein tyrosine kinase 2 | FADK,FAK,FAK1,pp125FAK | |
| 9454 | HOMER3 | homer homolog 3 (Drosophila) | HOMER-3 | |
| 2237 | FEN1 | flap structure-specific endonuclease 1 | FEN-1,MF1,RAD2 | |
| 3837 | KPNB1 | karyopherin (importin) beta 1 | IMB1,IPOB,Impnb,MGC2155,MGC2156,MGC2157,NTF97 | |
| 604 | BCL6 | B-cell CLL/lymphoma 6 (zinc finger protein 51) | BCL5,BCL6A,LAZ3,ZBTB27,ZNF51 | |
| 6996 | TDG | thymine-DNA glycosylase | - | |
| 5101 | PCDH9 | protocadherin 9 | - | |
| 7572 | ZNF24 | zinc finger protein 24 | KOX17,RSG-A,ZNF191,ZSCAN3,Zfp191 | |
| 655 | BMP7 | bone morphogenetic protein 7 (osteogenic protein 1) | OP-1 | |
| 6777 | STAT5B | signal transducer and activator of transcription 5B | STAT5 | |
| 3654 | IRAK1 | interleukin-1 receptor-associated kinase 1 | IRAK,pelle | |
| 8202 | NCOA3 | nuclear receptor coactivator 3 | ACTR,AIB-1,AIB1,CAGH16,CTG26,MGC141848,RAC3,SRC-1,SRC3,TNRC14,TNRC16,TRAM-1,pCIP | |
| 6662 | SOX9 | SRY (sex determining region Y)-box 9 (campomelic dysplasia, autosomal sex-reversal) | CMD1,CMPD1,SRA1 | |
| 2033 | EP300 | E1A binding protein p300 | p300 | |
| 864 | RUNX3 | runt-related transcription factor 3 | AML2,CBFA3,FLJ34510,MGC16070,PEBP2aC | |
| 165 | AEBP1 | AE binding protein 1 | ACLP,FLJ33612 | |
| 26471 | NUPR1 | nuclear protein 1 | COM1,P8 | |
| 5757 | PTMA | prothymosin, alpha (gene sequence 28) | MGC104802,TMSA | |
| 3572 | IL6ST | interleukin 6 signal transducer (gp130, oncostatin M receptor) | CD130,CDw130,GP130,GP130-RAPS,IL6R-beta | |
| 64761 | PARP12 | poly (ADP-ribose) polymerase family, member 12 | FLJ22693,PARP-12,ZC3H1,ZC3HDC1 | |
| 6502 | SKP2 | S-phase kinase-associated protein 2 (p45) | FBL1,FBXL1,FLB1,MGC1366 | |
| 8613 | PPAP2B | phosphatidic acid phosphatase type 2B | Dri42,LPP3,MGC15306,PAP-2b,PAP2-b,PAP2-beta,VCIP | |
| 6934 | TCF7L2 | transcription factor 7-like 2 (T-cell specific, HMG-box) | TCF-4,TCF4 | |
| 6663 | SOX10 | SRY (sex determining region Y)-box 10 | DOM,MGC15649,WS4 | |
| 4928 | NUP98 | nucleoporin 98kDa | ADIR2,NUP196 | |
| 3842 | TNPO1 | transportin 1 | IPO2,KPNB2,MIP,MIP1,TRN | |
| 9968 | MED12 | mediator of RNA polymerase II transcription, subunit 12 homolog (S. cerevisiae) | CAGH45,HOPA,KIAA0192,OPA1,TNRC11,TRAP230 | |
| 3178 | HNRPA1 | heterogeneous nuclear ribonucleoprotein A1 | HNRNPA1,MGC102835 | |
| 5998 | RGS3 | regulator of G-protein signalling 3 | C2PA,FLJ20370,FLJ31516,FLJ90496,PDZ-RGS3,RGP3 | |
| 6938 | TCF12 | transcription factor 12 (HTF4, helix-loop-helix transcription factors 4) | HEB,HTF4,HsT17266 | |
| 6658 | SOX3 | SRY (sex determining region Y)-box 3 | MRGH,SOXB | |
| 429 | ASCL1 | achaete-scute complex homolog 1 (Drosophila) | ASH1,HASH1,MASH1 | |
| 2073 | ERCC5 | excision repair cross-complementing rodent repair deficiency, complementation group 5 (xeroderma pigmentosum, complementation group G (Cockayne syndrome)) | ERCM2,UVDR,XPG,XPGC | |
| 3398 | ID2 | inhibitor of DNA binding 2, dominant negative helix-loop-helix protein | GIG8,ID2A,ID2H,MGC26389 | |
| 7704 | ZBTB16 | zinc finger and BTB domain containing 16 | PLZF,ZNF145 | |
| 4673 | NAP1L1 | nucleosome assembly protein 1-like 1 | FLJ16112,MGC23410,MGC8688,NAP1,NAP1L,NRP | |
| 1936 | EEF1D | eukaryotic translation elongation factor 1 delta (guanine nucleotide exchange protein) | EF-1D,FLJ20897,FP1047 | |
| 3516 | RBPJ | recombination signal binding protein for immunoglobulin kappa J region | CBF1,IGKJRB,IGKJRB1,KBF2,MGC61669,RBP-J,RBPJK,RBPSUH,SUH,csl | |