ISMARA results for ENCODE cell lines, H3K4me3, averaged replicates (Ernst 2011)

ISMARA - Integrated System for Motif Actitivity Response Analysis is a free online tool that recognizes most important transcription factors that are changing their activity in a set of samples.

Averaging sample configuration

Sample Condition
Rep1_Gm12878 GM12878
Rep1_Hepg2 HepG2
Rep1_Hmec HMEC
Rep1_Hsmm HSMM
Rep1_Huvec_V2 Huvec
Rep1_K562_V2 K562
Rep1_Nhek NHEK
Rep1_Nhlf NHLF
Rep2_Gm12878 GM12878
Rep2_Hepg2 HepG2
Rep2_Hmec HMEC
Rep2_Hsmm HSMM
Rep2_Huvec_V2 Huvec
Rep2_K562_V2 K562
Rep2_Nhek NHEK
Rep2_Nhlf NHLF

All motifs sorted by activity significance

Motif name Z-value Associated genes Profile Logo
HNF4A_NR2F1,2.p2 10.064 NR2F1 (EAR-3, COUP-TFI, TCFCOUP1, SVP44)
NR2F2 (COUP-TFII, COUPTFB, SVP40)
HNF4A (NR2A1, HNF4)
GATA6.p2 7.123 GATA6
PITX1..3.p2 6.404 PITX2 (IGDS, RS, Brx1, Otlx2, ARP1)
PITX3
PITX1 (PTX1, POTX)
RUNX1..3.p2 6.335 RUNX1 (PEBP2A2, AMLCR1)
RUNX3 (AML2, PEBP2A3)
RUNX2 (AML3, PEBP2A1, PEBP2aA1)
SNAI1..3.p2 6.259 SNAI2 (SLUGH1)
SNAI1 (SNA, SLUGH2, SNAH)
SNAI3 (SMUC, Zfp293)
HIC1.p2 6.195 HIC1 (ZBTB29)
HNF1A.p2 5.593 HNF1A (HNF1, LFB1)
HOX{A6,A7,B6,B7}.p2 5.562 HOXB6
HOXA7
HOXB7
HOXA6
MTF1.p2 5.520 MTF1
TFAP2{A,C}.p2 5.216 TFAP2C (AP2-GAMMA, ERF1, TFAP2G, hAP-2g)
TFAP2A (AP-2)
MZF1.p2 5.093 MZF1 (MZF1B, ZSCAN6, MZF-1, Zfp98)
FOS_FOS{B,L1}_JUN{B,D}.p2 4.960 FOS (c-fos, AP-1)
JUNB
FOSL1 (fra-1)
JUND (AP-1)
FOSB (G0S3, GOSB, GOS3, AP-1, MGC42291, DKFZp686C0818)
TEAD1.p2 4.950 TEAD1 (TEF-1)
TEAD2 (ETF, TEF4, TEF-4, TEAD-2)
TEAD3 (TEF5, TEAD5, TEF-5, DTEF-1, ETFR-1, TEAD-3)
TEAD4 (TEF3, RTEF1, TEF-3, EFTR-2, TEFR-1, TCF13L1, hRTEF-1B)
FEV.p2 4.502 FEV (PET-1, HSRNAFEV)
HBP1_HMGB_SSRP1_UBTF.p2 4.352 HMGB2
HMGB3 (HMG2A, MGC90319)
SSRP1 (FACT80)
UBTF (UBF, NOR-90)
HBP1
GTF2I.p2 4.328 GTF2I (TFII-I, BAP-135, SPIN, BTKAP1, DIWS, IB291)
KLF4.p3 4.260 KLF4 (EZF, GKLF)
POU2F1..3.p2 4.244 POU2F2 (OCT2)
POU2F1 (OCT1)
POU2F3 (OCT11, PLA-1, Skn-1a, Epoc-1)
NFY{A,B,C}.p2 4.032 NFYC (CBF-C)
NFYB (CBF-A, HAP3)
NFYA (HAP2, CBF-B)
EN1,2.p2 4.002 EN1
EN2
NHLH1,2.p2 3.987 NHLH1 (NSCL, NSCL1, bHLHa35)
NHLH2 (NSCL2, bHLHa34)
MYOD1.p2 3.985 MYOD1 (PUM, MYOD, bHLHc1)
ETS1,2.p2 3.964 ETS2
ETS1 (FLJ10768, ETS-1)
SPIB.p2 3.868 SPIB (SPI-B)
EP300.p2 3.864 EP300 (p300, KAT3B)
MAFB.p2 3.747 MAFB
HAND1,2.p2 3.722 HAND1 (eHand, Thing1, Hxt, bHLHa27)
HAND2 (dHand, Thing2, Hed, bHLHa26)
TFDP1.p2 3.685 TFDP1 (Dp-1, DRTF1, DP1)
DMAP1_NCOR{1,2}_SMARC.p2 3.564 SMARCA1 (SNF2LB, NURF140, ISWI, SWI)
SMARCC2 (BAF170, Rsc8, CRACC2)
SMARCA5 (hSNF2H, hISWI, ISWI)
NCOR1 (N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216)
NCOR2 (SMRT, SMRTE, TRAC-1, CTG26, TNRC14)
DMAP1 (DNMAP1, FLJ11543, KIAA1425, DNMTAP1, EAF2, SWC4)
NR1H4.p2 3.525 NR1H4 (FXR, RIP14, HRR1, HRR-1)
NFKB1_REL_RELA.p2 3.505 RELA (p65)
REL (I-Rel)
NFKB1 (KBF1, p105)
NRF1.p2 3.502 NRF1 (EWG, ALPHA-PAL)
IRF1,2,7.p3 3.463 IRF1 (MAR, IRF-1)
IRF2 (IRF-2, DKFZp686F0244)
IRF7 (IRF7A, IRF-7H)
TLX1..3_NFIC{dimer}.p2 3.453 TLX1
TLX3 (RNX)
ARNT_ARNT2_BHLHB2_MAX_MYC_USF1.p2 3.437 ARNT (HIF-1beta, bHLHe2)
MAX (bHLHd4)
MYC (c-Myc, bHLHe39)
USF1 (UEF, MLTFI, bHLHb11)
BHLHB2 (DEC1, bHLHe40)
ARNT2 (KIAA0307, bHLHe1)
GFI1B.p2 3.369 GFI1B
SRF.p3 3.308 SRF (MCM1)
MYFfamily.p2 3.210 MYOD1 (PUM, MYOD, bHLHc1)
MYF6 (MRF4, bHLHc4)
MYF5 (bHLHc2)
MYOG (bHLHc3)
SPI1.p2 3.151 SPI1 (PU.1, SPI-A, OF, SFPI1, SPI-1)
CRX.p2 2.961 CRX (CRD, LCA7, OTX3)
GFI1.p2 2.935 GFI1
ONECUT1,2.p2 2.919 ONECUT2 (OC-2)
ONECUT1 (HNF-6)
CTCF.p2 2.912 CTCF
PRDM1.p3 2.877 PRDM1 (PRDI-BF1)
ELK1,4_GABP{A,B1}.p3 2.871 GABPA (E4TF1A, NFT2, NRF2, E4TF1-60, NRF2A)
GABPB1 (E4TF1-47, GABPB)
ELK4 (SAP1)
ELK1
ZFP161.p2 2.868 ZFP161 (ZNF478, ZBTB14)
MSX1,2.p2 2.738 MSX1 (HYD1, OFC5)
MSX2 (CRS2, FPP, HOX8, MSH, PFM)
ZEB1.p2 2.724 ZEB1 (BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a)
TFCP2.p2 2.701 TFCP2 (CP2, LSF, LBP-1C, TFCP2C)
GATA1..3.p2 2.692 GATA1 (ERYF1, NFE1)
GATA2 (NFE1B)
GATA3 (HDR)
ZNF238.p2 2.658 ZNF238 (C2H2-171, TAZ-1, RP58, ZBTB18)
JUN.p2 2.655 JUN (c-Jun, AP-1)
JUND (AP-1)
JUNB
TCF4_dimer.p2 2.629 TCF4 (E2-2, ITF2, PTHS, SEF2, SEF2-1, SEF2-1A, SEF2-1B, bHLHb19, MGC149723, MGC149724)
ZIC1..3.p2 2.626 ZIC1 (ZIC, ZNF201)
ZIC2 (HPE5)
ZIC3 (HTX, ZNF203)
NR5A1,2.p2 2.605 NR5A1 (FTZ1, SF-1, ELP, AD4BP)
NR5A2 (FTZ-F1beta, hB1F, LRH-1, FTZ-F1, hB1F-2, B1F2)
HLF.p2 2.603 HLF (MGC33822)
ZBTB16.p2 2.596 ZBTB16 (PLZF)
FOXA2.p3 2.586 FOXA2
CEBPA,B_DDIT3.p2 2.567 DDIT3 (CHOP10, GADD153, CHOP)
CEBPA (C/EBP-alpha)
CEBPB (LAP, CRP2, NFIL6, IL6DBP)
YY1.p2 2.563 YY1 (NF-E1, DELTA, UCRBP, YIN-YANG-1, INO80S)
PATZ1.p2 2.556 PATZ1 (MAZR, dJ400N23, ZBTB19, ZSG, RIAZ, PATZ)
AHR_ARNT_ARNT2.p2 2.550 ARNT (HIF-1beta, bHLHe2)
AHR
ARNT2 (KIAA0307, bHLHe1)
EVI1.p2 2.508 EVI1 (MDS1-EVI1, PRDM3)
HIF1A.p2 2.466 HIF1A (MOP1, HIF-1alpha, PASD8, HIF1)
ESRRA.p2 2.465 ESRRA (ERR1, ERRalpha, NR3B1, ERRa)
RXR{A,B,G}.p2 2.455 RXRA (NR2B1)
RXRB (NR2B2, H-2RIIBP, RCoR-1)
RXRG (NR2B3)
NFATC1..3.p2 2.450 NFATC3 (NFAT4, NFATX)
NFATC2 (NF-ATP, NFATp, NFAT1)
NFATC1 (NF-ATC, NFATc, NFAT2)
NKX2-1,4.p2 2.439 NKX2-1 (TTF-1)
NKX2-4 (NKX2.4)
POU5F1.p2 2.422 POU5F1 (OCT3, Oct4, MGC22487)
NFE2L2.p2 2.419 NFE2L2 (NRF2)
MAZ.p2 2.385 MAZ (ZF87, Pur-1, Zif87, ZNF801)
PAX5.p2 2.360 PAX5 (BSAP)
RFX1..5_RFXANK_RFXAP.p2 2.357 RFX1 (EF-C)
RFXAP
RFX5
RFXANK (BLS, RFX-B, ANKRA1, F14150_1, MGC138628)
RFX4
RFX3
RFX2 (FLJ14226)
GTF2A1,2.p2 2.323 GTF2A1 (TFIIA)
GTF2A2 (TFIIA, HsT18745)
SOX2.p2 2.317 SOX2
KLF12.p2 2.310 KLF12 (AP-2rep, HSPC122, AP2REP)
ZNF143.p2 2.300 ZNF143 (SBF, pHZ-1, STAF)
HOX{A5,B5}.p2 2.298 HOXB5
HOXA5
POU1F1.p2 2.292 POU1F1 (GHF-1)
bHLH_family.p2 2.270 ARNTL (MOP3, JAP3, BMAL1, PASD3, bHLHe5)
MITF (WS2A, MI, bHLHe32)
MXI1 (MXD2, MAD2, MXI, bHLHc11)
TFE3 (TFEA, bHLHe33)
CLOCK (KIAA0334, KAT13D, bHLHe8)
OLIG2 (RACK17, OLIGO2, bHLHe19)
MXD4 (MAD4, MSTP149, MST149, bHLHc12)
HEY2 (bHLHb32)
HEY1 (HESR-1, CHF2, HESR1, HRT-1, CHF-2, HERP2, BHLHb31)
HEYL (bHLHb33)
MLXIPL (WS-bHLH, MIO, CHREBP, MONDOB)
HES6 (bHLHc23)
MXD3 (MAD3, bHLHc13)
ARNTL2 (BMAL2, MOP9, CLIF, PASD9, bHLHe6)
ID1 (dJ857M17.1.2, bHLHb24)
MNT (ROX, MXD6, MAD6, bHLHd3)
OLIG1 (BHLHB6, bHLHe21)
NPAS2 (MOP4, PASD4, bHLHe9)
SOX{8,9,10}.p2 2.260 SOX9 (SRA1)
SOX8
SOX10 (DOM, WS4, WS2E)
POU5F1_SOX2{dimer}.p2 2.227 POU5F1 (OCT3, Oct4, MGC22487)
SOX2
TFEB.p2 2.198 TFEB
FOX{I1,J2}.p2 2.166 FOXI1 (FREAC6)
FOXJ2 (FHX)
TAL1_TCF{3,4,12}.p2 2.145 TCF3 (E2A, ITF1, MGC129647, MGC129648, bHLHb21)
TCF4 (SEF2-1B, ITF2, bHLHb19)
TAL1 (SCL, bHLHa17)
TCF12 (HEB, HTF4, HsT17266, bHLHb20)
SP1.p2 2.131 SP1
NFIX.p2 2.087 NFIX (NF1A)
NKX3-2.p2 2.066 NKX3-2 (NKX3B, NKX3.2)
FOX{F1,F2,J1}.p2 2.041 FOXF2 (FREAC2)
FOXJ1 (HFH-4, HFH4)
FOXF1 (FREAC1)
XBP1.p3 2.031 XBP1
TBP.p2 2.015 TBP (TFIID)
RREB1.p2 1.996 RREB1 (HNT)
TFAP2B.p2 1.992 TFAP2B (AP2-B)
DBP.p2 1.988 DBP (DABP)
POU6F1.p2 1.971 POU6F1 (BRN5, MPOU, TCFB1)
FOXP3.p2 1.942 FOXP3 (JM2, XPID, AIID, PIDX, DIETER, SCURFIN)
ZNF423.p2 1.938 ZNF423 (KIAA0760, OAZ, Roaz, Ebfaz, Zfp104)
BPTF.p2 1.930 BPTF (FAC1, NURF301)
IKZF1.p2 1.916 IKZF1 (hIk-1, LyF-1, Hs.54452, IKAROS)
NFE2L1.p2 1.911 NFE2L1 (NRF1, LCR-F1, FLJ00380, TCF11)
EGR1..3.p2 1.880 EGR3 (PILOT)
EGR1 (TIS8, G0S30, NGFI-A, KROX-24, ZIF-268, AT225, ZNF225)
EGR2
ESR1.p2 1.861 ESR1 (NR3A1, Era)
PPARG.p2 1.847 PPARG (PPARG1, PPARG2, NR1C3, PPARgamma)
T.p2 1.819 T
PAX4.p2 1.797 PAX4
RBPJ.p2 1.789 RBPJ (SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1)
TFAP4.p2 1.777 TFAP4 (AP-4)
FOXQ1.p2 1.763 FOXQ1 (HFH1)
STAT5{A,B}.p2 1.759 STAT5B
STAT5A (MGF)
LMO2.p2 1.718 LMO2 (TTG2, RHOM2, RBTN2)
REST.p3 1.712 REST (NRSF, XBR)
NKX2-2,8.p2 1.702 NKX2-2 (NKX2.2)
NKX2-8 (NKX2.8, Nkx2-9)
LEF1_TCF7_TCF7L1,2.p2 1.683 TCF7 (TCF-1)
TCF7L2 (TCF-4)
LEF1 (TCF1ALPHA)
TCF7L1
HOXA9_MEIS1.p2 1.674 MEIS1
HOXA9
EHF.p2 1.657 EHF
TP53.p2 1.654 TP53 (p53, LFS1)
HOX{A4,D4}.p2 1.649 HOXA4
HOXD4
SOX5.p2 1.631 SOX5 (L-SOX5, MGC35153)
SRY.p2 1.629 SRY (TDF)
NR3C1.p2 1.607 NR3C1 (GR)
NANOG{mouse}.p2 1.606 NANOG (FLJ12581, FLJ40451)
FOSL2.p2 1.589 FOSL2 (FRA2, FLJ23306)
ATF5_CREB3.p2 1.587 ATF5
CREB3 (LZIP, Luman)
FOX{D1,D2}.p2 1.572 FOXD2 (FREAC9)
FOXD1 (FREAC4)
FOXN1.p2 1.540 FOXN1 (FKHL20)
POU3F1..4.p2 1.515 POU3F1 (OCT6, SCIP)
POU3F3 (BRN1, OTF8)
POU3F2 (POUF3, BRN2, OCT7)
POU3F4 (BRN4, OTF9)
NKX3-1.p2 1.504 NKX3-1 (NKX3.1, BAPX2)
TBX4,5.p2 1.499 TBX5
TBX4
EBF1.p2 1.481 EBF1 (OLF1)
ARID5B.p2 1.481 ARID5B (FLJ21150, MRF2)
SPZ1.p2 1.481 SPZ1 (NYD-TSP1, FLJ25709)
STAT2,4,6.p2 1.474 STAT2 (STAT113)
STAT4
STAT6 (D12S1644, IL-4-STAT)
ALX1.p2 1.469 ALX1
RXRA_VDR{dimer}.p2 1.463 VDR (NR1I1)
NFE2.p2 1.462 NFE2 (NF-E2)
CDC5L.p2 1.428 CDC5L (PCDC5RP, hCDC5, CEF1)
AIRE.p2 1.420 AIRE (PGA1, APS1)
NKX6-1,2.p2 1.415 NKX6-1 (Nkx6.1)
NKX6-2 (NKX6B, GTX, NKX6.1)
HMGA1,2.p2 1.403 HMGA1
HMGA2 (BABL, LIPO)
TGIF1.p2 1.401 TGIF1
CREB1.p2 1.392 CREB1
BACH2.p2 1.391 BACH2
ZBTB6.p2 1.385 ZBTB6 (ZID)
ATF4.p2 1.385 ATF4 (TAXREB67, CREB-2)
ZNF384.p2 1.380 ZNF384 (CAGH1A, CIZ, NMP4, NP)
PRRX1,2.p2 1.354 PRRX2 (PRX2, PMX2)
PRRX1 (PHOX1)
PBX1.p2 1.354 PBX1
ADNP_IRX_SIX_ZHX.p2 1.349 SIX5
ZHX1
IRX4
ADNP (KIAA0784, ADNP1)
ZHX3 (KIAA0395)
ZHX2 (KIAA0854)
IRX5 (IRX-2a)
SIX2
ELF1,2,4.p2 1.333 ELF2 (EU32, NERF, NERF-2, NERF-1A, NERF-1B)
ELF1
ELF4 (MEF, ELFR)
IKZF2.p2 1.331 IKZF2 (Helios)
ATF6.p2 1.330 ATF6 (ATF6A)
FOXL1.p2 1.323 FOXL1 (FREAC7, FKH6)
HMX1.p2 1.319 HMX1 (H6, NKX5-3)
MYBL2.p2 1.303 MYBL2 (BMYB, B-MYB)
LHX3,4.p2 1.295 LHX3
LHX4 (Gsh4)
EWSR1-FLI1.p2 1.231 FLI1 (EWSR2, SIC-1)
EWSR1 (EWS, K984G1.4)
CUX2.p2 1.223 CUX2 (KIAA0293, CDP2)
MEF2{A,B,C,D}.p2 1.211 MEF2A (RSRFC4, RSRFC9)
MEF2C
MEF2D
MEF2BNB-MEF2B (MEF2B, LOC729991-MEF2B)
MEF2B (RSRFR2, FLJ32648)
ZNF148.p2 1.202 ZNF148 (BERF-1, ZBP-89, BFCOL1, HT-BETA, ZFP148, pHZ-52)
CDX1,2,4.p2 1.199 CDX1
CDX2
CDX4
STAT1,3.p3 1.187 STAT1 (STAT91, ISGF-3)
STAT3 (APRF)
FOXD3.p2 1.174 FOXD3 (Genesis, HFH2)
FOXO1,3,4.p2 1.172 FOXO1 (FKH1)
FOXO4 (AFX1)
FOXO3 (AF6q21, FOXO2)
MYB.p2 1.141 MYB (c-myb)
SREBF1,2.p2 1.128 SREBF1 (SREBP1, bHLHd1)
SREBF2 (SREBP2, bHLHd2)
NKX2-3_NKX2-5.p2 1.124 NKX2-5 (CSX1, NKX2.5, NKX4-1)
NKX2-3 (NKX2.3, CSX3, NKX4-3)
E2F1..5.p2 1.118 E2F4 (E2F-4)
E2F5
E2F2 (E2F-2)
E2F1 (RBP3)
E2F3
AR.p2 1.116 AR (AIS, NR3C4, SMAX1, HUMARA)
EOMES.p2 1.115 EOMES (TBR2)
SOX17.p2 1.113 SOX17
ATF2.p2 1.064 ATF2 (TREB7, CRE-BP1, HB16)
FOX{C1,C2}.p2 1.012 FOXC1 (FREAC3, ARA, IGDA, IHG1)
FOXC2 (MFH-1)
HES1.p2 1.011 HES1 (FLJ20408, HES-1, Hes1, bHLHb39)
VSX1,2.p2 1.009 VSX2 (RET1)
VSX1 (PPD)
SMAD1..7,9.p2 1.005 SMAD5 (Dwfc, JV5-1)
SMAD1 (MADR1, JV4-1)
SMAD3 (JV15-2, HsT17436)
SMAD4 (DPC4)
SMAD2 (MADR2, JV18-1)
SMAD6 (HsT17432)
SMAD7
SMAD9
TLX2.p2 0.999 TLX2 (Enx, Tlx2, NCX)
GZF1.p2 0.919 GZF1 (dJ322G13.2, ZBTB23)
NANOG.p2 0.889 NANOG (FLJ12581, FLJ40451)
HSF1,2.p2 0.855 HSF1 (HSTF1)
HSF2
NR6A1.p2 0.812 NR6A1 (GCNF1, RTR)
NFIL3.p2 0.789 NFIL3 (E4BP4, NFIL3A, NF-IL3A)
RORA.p2 0.784 RORA (RZRA, ROR1, ROR2, ROR3, NR1F1)
PAX2.p2 0.751 PAX2
RXRG_dimer.p3 0.748 NR1H2 (NER, NER-I, RIP15, LXR-b)
RXRA (NR2B1)
PPARG (PPARG1, PPARG2, NR1C3, PPARgamma)
PPARA (hPPAR, NR1C1)
RXRB (NR2B2, H-2RIIBP, RCoR-1)
RXRG (NR2B3)
PAX6.p2 0.622 PAX6 (D11S812E, AN, WAGR)
PDX1.p2 0.570 PDX1 (IDX-1, STF-1, PDX-1, MODY4)
GLI1..3.p2 0.531 GLI1
GLI2 (THP2, HPE9, THP1)
GLI3 (PAP-A, PAPA, PAPA1, PAPB, ACLS, PPDIV)
PAX8.p2 0.325 PAX8
PAX3,7.p2 0.325 PAX7 (Hup1)
PAX3 (HUP2)

All samples sorted alphabetically


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Sample name Condition Replicate/Batch
GM12878
HepG2
HMEC
HSMM
Huvec
K562
NHEK
NHLF