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Table 6 The predicted regulatory signature of the developing human heart

From: Predicting tissue specific cis-regulatory modules in the human genome using pairs of co-occurring motifs

Pair E-value p Pair E-value p Pair E-value p
ZF5 & SZF11 12.5 E2F & HIC1 12.5 IRF1 & HIC1 12.5
SOX2 & ZFX 11.2 GATA1 & ZFX 12.5 TGIF & COREBINDINGFACTOR 11.2
AP2 & GATA 11.2 LTF & E2F1 12.5 FOXJ2 & CREL 11.2
MSX3 & CKROX 11.2 AIRE & LMX1 11.2 EGR & NFY 11.2
DAX1 & LXR 11.2 E2F & MYOD 12.5 MEF2 & AP4 11.2
CETS1P54 & DEAF1 11.2 FPM315 & LMO2COM 12.0 ZFP206 & LUN1 11.2
MAZ & BARX2 11.2 BACH2 & COUP 11.2 ZF5 & CAAT 11.2
ATF1 & ZFX 11.2 ALPHACP1 & RNF96 11.2 LHX8 & IK 11.2
SP1SP3 & RFX1 11.0 SP1 & MSX1 11.2 PEA3 & SMAD4 11.0
MOVOB & ELK1 11.0 ZNF219 & GATA2 10.8 ETS & GABP 10.7
STAT1 & RNF96 10.0 PXRRXR & SP1 10.0 XPF1 & EGR1 10.0
POU6F1 & AP2GAMMA 10.0 GATA6 & KROX 10.0 AP2ALPHA & LMX1 10.0
RXRG & RNF96 10.0 GATA1 & AP2 10.0 NFY & CNOT3 10.0
ZIC2 & CMYB 10.0 HIC1 & FOX 10.0 FPM315 & ATF 10.0
EBF & CNOT3 10.0 LMX1 & NKX12 10.0 LEF1 & WT1 10.0
LIM1 & LHX61 10.0 SP4 & GATA 10.0 NFKB & PAX4 10.0
AR & PAX4 10.0 AP2 & AHRARNT 10.0 CNOT3 & LUN1 10.0
ZNF515 & BEN 10.0 NF1 & CAAT 10.0 CNOT3 & ARNT 10.0
AREB6 & RNF96 10.0 AP2ALPHA & NMYC 10.0 NFKB & NGFIC 10.0
MAZR & LMO2COM 10.0 TAL1BETAITF2 & ZIC1 10.0 MYOGNF1 & PAX5 10.0
HEB & EN2 10.0 MINI19 & LIM1 10.0 CPHX & VDR 10.0
SPZ1 & GATA3 10.0 EBF & E2F1 10.0 MEF2 & E2A 10.0
GLI3 & FOXO4 10.0 NFKB & MEIS1AHOXA9 10.0 MSX2 & UF1H3BETA 10.0
ETF & TBX22 10.0 ZBED6 & MEF2 10.0 CNOT3 & PXRRXR 10.0
KROX & NFY 10.0 SP2 & GATA2 10.0 MYOD & MEF2 10.0
ROAZ & E2F1 10.0 GATA6 & UF1H3BETA 10.0 SP1 & GATA 10.0
AML2 & KLF15 10.0 ZF5 & TTF1 10.0 MZF1 & MIF1 10.0
MECP2 & GC 10.0 NFY & WT1 9.1 AREB6 & WT1 9.3
ZIC1 & E2F1 9.3 HIC1 & FOX 9.1 ZNF219 & GTF2IRD1 9.1
EGR & GATA2 9.1 CNOT3 & PU1 9.2 MINI19 & AREB6 9.1
GATA & SP1 9.0 MUSCLE & CREBATF 9.0 STAT3 & E2F1 9.0
HIC1 & HFH4 9.0 MUSCLE & MEF2 9.0 TBX15 & SP3 9.0
CTCF & CPHX 9.0 FOXO3 & PAX5 9.0 PAX9 & PAX4 8.7
NFY & SP1 8.7 EGR & GATA2 8.6 SPZ1 & ZF5 8.4
LBP1 & POLY 8.3 PEA3 & MINI19 8.3 CNOT3 & AHRARNT 8.3
SP1 & SOX10 8.3 BARHL1 & CKROX 8.3 AP2 & ATF1 8.3
AP2 & MEF2 8.3 EGR & DEAF1 8.2 COUPTF & ZF5 8.2
SP1 & NFY 8.1 AMEF2 & TBX15 8.0 TAL1BETAITF2 & SP2 8.0
PXRRXR & HIC1 8.0 AP2 & E2F1 8.0 TGIF & MRG2 8.0
RXRG & ZBED6 8.0 E2A & SRF 8.0 SP3 & ELK1 8.0
CEBP & CEBP 8.0 TATA & ERR1 8.0 E2F1 & SP1 8.0
AML2 & GC 8.0 XPF1 & SREBP 8.0 EGR1 & SMAD 8.0
ZIC1 & PPARG 8.0 DBP & E47 8.0 KROX & HMEF2 8.0
CTCF & GATA3 8.0 EAR2 & ETF 8.0 SP1 & PXRRXR 8.0
  1. CrmMiner predicted 132 motif pairs that comprise the regulatory signature of the developing human heart. The score of a sequence is the sum of the enrichment values (E-value p , Equation 1) of any of the 132 pairs present in the sequence provided that a pair of motifs meets the distance requirement (≤ 100 bp). A sequence that has a score equal to or above 23.8 is predicted to be a CRM specific to the developing heart. The 23.8 is the threshold that was determined at the training and the parameter-optimization stages. The unit of E-value p is fold.