Table 6.
The predicted regulatory signature of the developing human heart
| Pair | E-valuep | Pair | E-valuep | Pair | E-valuep |
|---|---|---|---|---|---|
| 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 |
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-valuep, 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-valuep is fold.