ISMARA results for ENCODE cell lines, expression, 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 Huvec
Rep1_K562 K562
Rep1_NHEK NHEK
Rep1_NHLF NHLF
Rep2_GM12878 GM12878
Rep2_HepG2 HepG2
Rep2_HMEC HMEC
Rep2_HSMM HSMM
Rep2_HUVEC Huvec
Rep2_K562 K562
Rep2_NHEK NHEK
Rep2_NHLF NHLF

All motifs sorted by activity significance

Motif name Z-value Associated genes Profile Logo
E2F1..5.p2 7.514 E2F4 (E2F-4)
E2F5
E2F2 (E2F-2)
E2F1 (RBP3)
E2F3
IRF1,2,7.p3 7.035 IRF1 (MAR, IRF-1)
IRF2 (IRF-2, DKFZp686F0244)
IRF7 (IRF7A, IRF-7H)
SNAI1..3.p2 6.710 SNAI2 (SLUGH1)
SNAI1 (SNA, SLUGH2, SNAH)
SNAI3 (SMUC, Zfp293)
HNF1A.p2 6.308 HNF1A (HNF1, LFB1)
FOS_FOS{B,L1}_JUN{B,D}.p2 5.768 FOS (c-fos, AP-1)
JUNB
FOSL1 (fra-1)
JUND (AP-1)
FOSB (G0S3, GOSB, GOS3, AP-1, MGC42291, DKFZp686C0818)
TEAD1.p2 5.708 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)
HNF4A_NR2F1,2.p2 5.654 NR2F1 (EAR-3, COUP-TFI, TCFCOUP1, SVP44)
NR2F2 (COUP-TFII, COUPTFB, SVP40)
HNF4A (NR2A1, HNF4)
HIC1.p2 5.528 HIC1 (ZBTB29)
SRF.p3 5.376 SRF (MCM1)
POU2F1..3.p2 5.296 POU2F2 (OCT2)
POU2F1 (OCT1)
POU2F3 (OCT11, PLA-1, Skn-1a, Epoc-1)
NRF1.p2 5.286 NRF1 (EWG, ALPHA-PAL)
ELK1,4_GABP{A,B1}.p3 5.076 GABPA (E4TF1A, NFT2, NRF2, E4TF1-60, NRF2A)
GABPB1 (E4TF1-47, GABPB)
ELK4 (SAP1)
ELK1
ZNF143.p2 4.849 ZNF143 (SBF, pHZ-1, STAF)
NFY{A,B,C}.p2 4.588 NFYC (CBF-C)
NFYB (CBF-A, HAP3)
NFYA (HAP2, CBF-B)
TBP.p2 4.468 TBP (TFIID)
HOX{A6,A7,B6,B7}.p2 4.461 HOXB6
HOXA7
HOXB7
HOXA6
PITX1..3.p2 4.452 PITX2 (IGDS, RS, Brx1, Otlx2, ARP1)
PITX3
PITX1 (PTX1, POTX)
MTF1.p2 4.377 MTF1
SPI1.p2 4.254 SPI1 (PU.1, SPI-A, OF, SFPI1, SPI-1)
MYB.p2 4.156 MYB (c-myb)
MYOD1.p2 4.073 MYOD1 (PUM, MYOD, bHLHc1)
KLF4.p3 4.063 KLF4 (EZF, GKLF)
YY1.p2 4.034 YY1 (NF-E1, DELTA, UCRBP, YIN-YANG-1, INO80S)
NFKB1_REL_RELA.p2 4.001 RELA (p65)
REL (I-Rel)
NFKB1 (KBF1, p105)
TLX1..3_NFIC{dimer}.p2 3.938 TLX1
TLX3 (RNX)
RUNX1..3.p2 3.926 RUNX1 (PEBP2A2, AMLCR1)
RUNX3 (AML2, PEBP2A3)
RUNX2 (AML3, PEBP2A1, PEBP2aA1)
TFEB.p2 3.775 TFEB
MYFfamily.p2 3.760 MYOD1 (PUM, MYOD, bHLHc1)
MYF6 (MRF4, bHLHc4)
MYF5 (bHLHc2)
MYOG (bHLHc3)
NFIX.p2 3.650 NFIX (NF1A)
ZEB1.p2 3.644 ZEB1 (BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a)
ARNT_ARNT2_BHLHB2_MAX_MYC_USF1.p2 3.631 ARNT (HIF-1beta, bHLHe2)
MAX (bHLHd4)
MYC (c-Myc, bHLHe39)
USF1 (UEF, MLTFI, bHLHb11)
BHLHB2 (DEC1, bHLHe40)
ARNT2 (KIAA0307, bHLHe1)
TFAP2{A,C}.p2 3.552 TFAP2C (AP2-GAMMA, ERF1, TFAP2G, hAP-2g)
TFAP2A (AP-2)
TCF4_dimer.p2 3.374 TCF4 (E2-2, ITF2, PTHS, SEF2, SEF2-1, SEF2-1A, SEF2-1B, bHLHb19, MGC149723, MGC149724)
DBP.p2 3.308 DBP (DABP)
NR5A1,2.p2 3.258 NR5A1 (FTZ1, SF-1, ELP, AD4BP)
NR5A2 (FTZ-F1beta, hB1F, LRH-1, FTZ-F1, hB1F-2, B1F2)
TFCP2.p2 3.243 TFCP2 (CP2, LSF, LBP-1C, TFCP2C)
ZNF148.p2 3.197 ZNF148 (BERF-1, ZBP-89, BFCOL1, HT-BETA, ZFP148, pHZ-52)
GATA1..3.p2 3.167 GATA1 (ERYF1, NFE1)
GATA2 (NFE1B)
GATA3 (HDR)
XBP1.p3 3.113 XBP1
EP300.p2 3.103 EP300 (p300, KAT3B)
ATF6.p2 3.048 ATF6 (ATF6A)
MZF1.p2 3.026 MZF1 (MZF1B, ZSCAN6, MZF-1, Zfp98)
HBP1_HMGB_SSRP1_UBTF.p2 2.994 HMGB2
HMGB3 (HMG2A, MGC90319)
SSRP1 (FACT80)
UBTF (UBF, NOR-90)
HBP1
EHF.p2 2.984 EHF
SPIB.p2 2.977 SPIB (SPI-B)
NHLH1,2.p2 2.960 NHLH1 (NSCL, NSCL1, bHLHa35)
NHLH2 (NSCL2, bHLHa34)
POU5F1.p2 2.852 POU5F1 (OCT3, Oct4, MGC22487)
NKX3-1.p2 2.747 NKX3-1 (NKX3.1, BAPX2)
HIF1A.p2 2.743 HIF1A (MOP1, HIF-1alpha, PASD8, HIF1)
HES1.p2 2.729 HES1 (FLJ20408, HES-1, Hes1, bHLHb39)
NFATC1..3.p2 2.677 NFATC3 (NFAT4, NFATX)
NFATC2 (NF-ATP, NFATp, NFAT1)
NFATC1 (NF-ATC, NFATc, NFAT2)
KLF12.p2 2.650 KLF12 (AP-2rep, HSPC122, AP2REP)
TBX4,5.p2 2.612 TBX5
TBX4
IKZF1.p2 2.586 IKZF1 (hIk-1, LyF-1, Hs.54452, IKAROS)
NFE2L1.p2 2.566 NFE2L1 (NRF1, LCR-F1, FLJ00380, TCF11)
RREB1.p2 2.548 RREB1 (HNT)
STAT2,4,6.p2 2.543 STAT2 (STAT113)
STAT4
STAT6 (D12S1644, IL-4-STAT)
FOX{F1,F2,J1}.p2 2.523 FOXF2 (FREAC2)
FOXJ1 (HFH-4, HFH4)
FOXF1 (FREAC1)
bHLH_family.p2 2.512 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)
PRDM1.p3 2.510 PRDM1 (PRDI-BF1)
NFE2L2.p2 2.501 NFE2L2 (NRF2)
TFAP2B.p2 2.466 TFAP2B (AP2-B)
RXR{A,B,G}.p2 2.431 RXRA (NR2B1)
RXRB (NR2B2, H-2RIIBP, RCoR-1)
RXRG (NR2B3)
GFI1.p2 2.397 GFI1
HSF1,2.p2 2.391 HSF1 (HSTF1)
HSF2
SMAD1..7,9.p2 2.391 SMAD5 (Dwfc, JV5-1)
SMAD1 (MADR1, JV4-1)
SMAD3 (JV15-2, HsT17436)
SMAD4 (DPC4)
SMAD2 (MADR2, JV18-1)
SMAD6 (HsT17432)
SMAD7
SMAD9
ZNF384.p2 2.377 ZNF384 (CAGH1A, CIZ, NMP4, NP)
ZNF238.p2 2.372 ZNF238 (C2H2-171, TAZ-1, RP58, ZBTB18)
LEF1_TCF7_TCF7L1,2.p2 2.370 TCF7 (TCF-1)
TCF7L2 (TCF-4)
LEF1 (TCF1ALPHA)
TCF7L1
TFDP1.p2 2.370 TFDP1 (Dp-1, DRTF1, DP1)
NKX3-2.p2 2.351 NKX3-2 (NKX3B, NKX3.2)
ZBTB16.p2 2.347 ZBTB16 (PLZF)
FOXA2.p3 2.320 FOXA2
SOX17.p2 2.315 SOX17
MSX1,2.p2 2.300 MSX1 (HYD1, OFC5)
MSX2 (CRS2, FPP, HOX8, MSH, PFM)
FOX{I1,J2}.p2 2.287 FOXI1 (FREAC6)
FOXJ2 (FHX)
FOXD3.p2 2.269 FOXD3 (Genesis, HFH2)
IKZF2.p2 2.258 IKZF2 (Helios)
SREBF1,2.p2 2.242 SREBF1 (SREBP1, bHLHd1)
SREBF2 (SREBP2, bHLHd2)
RFX1..5_RFXANK_RFXAP.p2 2.230 RFX1 (EF-C)
RFXAP
RFX5
RFXANK (BLS, RFX-B, ANKRA1, F14150_1, MGC138628)
RFX4
RFX3
RFX2 (FLJ14226)
HLF.p2 2.229 HLF (MGC33822)
MAFB.p2 2.211 MAFB
MEF2{A,B,C,D}.p2 2.198 MEF2A (RSRFC4, RSRFC9)
MEF2C
MEF2D
MEF2BNB-MEF2B (MEF2B, LOC729991-MEF2B)
MEF2B (RSRFR2, FLJ32648)
FEV.p2 2.194 FEV (PET-1, HSRNAFEV)
DMAP1_NCOR{1,2}_SMARC.p2 2.193 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)
ELF1,2,4.p2 2.184 ELF2 (EU32, NERF, NERF-2, NERF-1A, NERF-1B)
ELF1
ELF4 (MEF, ELFR)
POU5F1_SOX2{dimer}.p2 2.171 POU5F1 (OCT3, Oct4, MGC22487)
SOX2
MAZ.p2 2.161 MAZ (ZF87, Pur-1, Zif87, ZNF801)
GTF2A1,2.p2 2.151 GTF2A1 (TFIIA)
GTF2A2 (TFIIA, HsT18745)
GATA6.p2 2.149 GATA6
SOX{8,9,10}.p2 2.147 SOX9 (SRA1)
SOX8
SOX10 (DOM, WS4, WS2E)
ETS1,2.p2 2.144 ETS2
ETS1 (FLJ10768, ETS-1)
FOXO1,3,4.p2 2.143 FOXO1 (FKH1)
FOXO4 (AFX1)
FOXO3 (AF6q21, FOXO2)
PAX4.p2 2.127 PAX4
LMO2.p2 2.106 LMO2 (TTG2, RHOM2, RBTN2)
AHR_ARNT_ARNT2.p2 2.088 ARNT (HIF-1beta, bHLHe2)
AHR
ARNT2 (KIAA0307, bHLHe1)
NKX2-3_NKX2-5.p2 2.022 NKX2-5 (CSX1, NKX2.5, NKX4-1)
NKX2-3 (NKX2.3, CSX3, NKX4-3)
PATZ1.p2 2.007 PATZ1 (MAZR, dJ400N23, ZBTB19, ZSG, RIAZ, PATZ)
ESRRA.p2 2.005 ESRRA (ERR1, ERRalpha, NR3B1, ERRa)
SOX2.p2 2.004 SOX2
TFAP4.p2 1.992 TFAP4 (AP-4)
FOXL1.p2 1.953 FOXL1 (FREAC7, FKH6)
ZFP161.p2 1.932 ZFP161 (ZNF478, ZBTB14)
SRY.p2 1.863 SRY (TDF)
HAND1,2.p2 1.815 HAND1 (eHand, Thing1, Hxt, bHLHa27)
HAND2 (dHand, Thing2, Hed, bHLHa26)
FOXN1.p2 1.803 FOXN1 (FKHL20)
PRRX1,2.p2 1.798 PRRX2 (PRX2, PMX2)
PRRX1 (PHOX1)
ATF5_CREB3.p2 1.761 ATF5
CREB3 (LZIP, Luman)
CDC5L.p2 1.734 CDC5L (PCDC5RP, hCDC5, CEF1)
SOX5.p2 1.733 SOX5 (L-SOX5, MGC35153)
TP53.p2 1.711 TP53 (p53, LFS1)
GTF2I.p2 1.703 GTF2I (TFII-I, BAP-135, SPIN, BTKAP1, DIWS, IB291)
JUN.p2 1.702 JUN (c-Jun, AP-1)
JUND (AP-1)
JUNB
NKX6-1,2.p2 1.694 NKX6-1 (Nkx6.1)
NKX6-2 (NKX6B, GTX, NKX6.1)
ZNF423.p2 1.680 ZNF423 (KIAA0760, OAZ, Roaz, Ebfaz, Zfp104)
ATF4.p2 1.657 ATF4 (TAXREB67, CREB-2)
AR.p2 1.655 AR (AIS, NR3C4, SMAX1, HUMARA)
ESR1.p2 1.647 ESR1 (NR3A1, Era)
BACH2.p2 1.642 BACH2
FOX{C1,C2}.p2 1.639 FOXC1 (FREAC3, ARA, IGDA, IHG1)
FOXC2 (MFH-1)
POU3F1..4.p2 1.612 POU3F1 (OCT6, SCIP)
POU3F3 (BRN1, OTF8)
POU3F2 (POUF3, BRN2, OCT7)
POU3F4 (BRN4, OTF9)
CRX.p2 1.606 CRX (CRD, LCA7, OTX3)
NR1H4.p2 1.594 NR1H4 (FXR, RIP14, HRR1, HRR-1)
CREB1.p2 1.583 CREB1
HMX1.p2 1.582 HMX1 (H6, NKX5-3)
ONECUT1,2.p2 1.573 ONECUT2 (OC-2)
ONECUT1 (HNF-6)
CTCF.p2 1.563 CTCF
ZBTB6.p2 1.562 ZBTB6 (ZID)
POU6F1.p2 1.561 POU6F1 (BRN5, MPOU, TCFB1)
TGIF1.p2 1.544 TGIF1
GFI1B.p2 1.536 GFI1B
LHX3,4.p2 1.527 LHX3
LHX4 (Gsh4)
SPZ1.p2 1.523 SPZ1 (NYD-TSP1, FLJ25709)
STAT1,3.p3 1.498 STAT1 (STAT91, ISGF-3)
STAT3 (APRF)
NKX2-2,8.p2 1.482 NKX2-2 (NKX2.2)
NKX2-8 (NKX2.8, Nkx2-9)
RXRG_dimer.p3 1.464 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)
POU1F1.p2 1.461 POU1F1 (GHF-1)
MYBL2.p2 1.459 MYBL2 (BMYB, B-MYB)
PAX2.p2 1.455 PAX2
RBPJ.p2 1.433 RBPJ (SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1)
ATF2.p2 1.428 ATF2 (TREB7, CRE-BP1, HB16)
ALX1.p2 1.420 ALX1
PAX5.p2 1.416 PAX5 (BSAP)
NANOG{mouse}.p2 1.405 NANOG (FLJ12581, FLJ40451)
FOXQ1.p2 1.391 FOXQ1 (HFH1)
FOSL2.p2 1.368 FOSL2 (FRA2, FLJ23306)
SP1.p2 1.361 SP1
NANOG.p2 1.357 NANOG (FLJ12581, FLJ40451)
EN1,2.p2 1.350 EN1
EN2
NFE2.p2 1.346 NFE2 (NF-E2)
BPTF.p2 1.331 BPTF (FAC1, NURF301)
AIRE.p2 1.316 AIRE (PGA1, APS1)
NFIL3.p2 1.303 NFIL3 (E4BP4, NFIL3A, NF-IL3A)
CEBPA,B_DDIT3.p2 1.293 DDIT3 (CHOP10, GADD153, CHOP)
CEBPA (C/EBP-alpha)
CEBPB (LAP, CRP2, NFIL6, IL6DBP)
PPARG.p2 1.293 PPARG (PPARG1, PPARG2, NR1C3, PPARgamma)
TLX2.p2 1.291 TLX2 (Enx, Tlx2, NCX)
GLI1..3.p2 1.226 GLI1
GLI2 (THP2, HPE9, THP1)
GLI3 (PAP-A, PAPA, PAPA1, PAPB, ACLS, PPDIV)
FOX{D1,D2}.p2 1.202 FOXD2 (FREAC9)
FOXD1 (FREAC4)
RORA.p2 1.185 RORA (RZRA, ROR1, ROR2, ROR3, NR1F1)
FOXP3.p2 1.154 FOXP3 (JM2, XPID, AIID, PIDX, DIETER, SCURFIN)
HMGA1,2.p2 1.110 HMGA1
HMGA2 (BABL, LIPO)
HOX{A5,B5}.p2 1.109 HOXB5
HOXA5
EBF1.p2 1.072 EBF1 (OLF1)
REST.p3 1.068 REST (NRSF, XBR)
NR3C1.p2 1.042 NR3C1 (GR)
ZIC1..3.p2 1.021 ZIC1 (ZIC, ZNF201)
ZIC2 (HPE5)
ZIC3 (HTX, ZNF203)
NKX2-1,4.p2 1.006 NKX2-1 (TTF-1)
NKX2-4 (NKX2.4)
HOXA9_MEIS1.p2 1.002 MEIS1
HOXA9
CDX1,2,4.p2 0.998 CDX1
CDX2
CDX4
EWSR1-FLI1.p2 0.978 FLI1 (EWSR2, SIC-1)
EWSR1 (EWS, K984G1.4)
CUX2.p2 0.952 CUX2 (KIAA0293, CDP2)
EGR1..3.p2 0.941 EGR3 (PILOT)
EGR1 (TIS8, G0S30, NGFI-A, KROX-24, ZIF-268, AT225, ZNF225)
EGR2
ADNP_IRX_SIX_ZHX.p2 0.935 SIX5
ZHX1
IRX4
ADNP (KIAA0784, ADNP1)
ZHX3 (KIAA0395)
ZHX2 (KIAA0854)
IRX5 (IRX-2a)
SIX2
RXRA_VDR{dimer}.p2 0.925 VDR (NR1I1)
STAT5{A,B}.p2 0.919 STAT5B
STAT5A (MGF)
GZF1.p2 0.907 GZF1 (dJ322G13.2, ZBTB23)
TAL1_TCF{3,4,12}.p2 0.879 TCF3 (E2A, ITF1, MGC129647, MGC129648, bHLHb21)
TCF4 (SEF2-1B, ITF2, bHLHb19)
TAL1 (SCL, bHLHa17)
TCF12 (HEB, HTF4, HsT17266, bHLHb20)
HOX{A4,D4}.p2 0.870 HOXA4
HOXD4
EOMES.p2 0.865 EOMES (TBR2)
ARID5B.p2 0.827 ARID5B (FLJ21150, MRF2)
NR6A1.p2 0.762 NR6A1 (GCNF1, RTR)
PBX1.p2 0.692 PBX1
EVI1.p2 0.649 EVI1 (MDS1-EVI1, PRDM3)
T.p2 0.629 T
PDX1.p2 0.582 PDX1 (IDX-1, STF-1, PDX-1, MODY4)
VSX1,2.p2 0.428 VSX2 (RET1)
VSX1 (PPD)
PAX6.p2 0.381 PAX6 (D11S812E, AN, WAGR)
PAX3,7.p2 0.356 PAX7 (Hup1)
PAX3 (HUP2)
PAX8.p2 0.184 PAX8

All samples sorted alphabetically


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