| Rank | Motif | Name | P-value | log P-pvalue | q-value (Benjamini) | # Target Sequences with Motif | % of Targets Sequences with Motif | # Background Sequences with Motif | % of Background Sequences with Motif | Motif File |
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| 1 |  | Egr1(Zf)/K562-Egr1-ChIP-Seq(GSE32465)/Homer | 1e-145 | -3.353e+02 | 0.0000 | 1251.0 | 32.02% | 7038.1 | 15.47% | motif file (matrix) |
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| 2 |  | Mef2c(MADS)/GM12878-Mef2c-ChIP-Seq(GSE32465)/Homer | 1e-118 | -2.721e+02 | 0.0000 | 1069.0 | 27.36% | 6057.9 | 13.31% | motif file (matrix) |
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| 3 |  | Mef2a(MADS)/HL1-Mef2a.biotin-ChIP-Seq(GSE21529)/Homer | 1e-106 | -2.462e+02 | 0.0000 | 970.0 | 24.83% | 5460.4 | 12.00% | motif file (matrix) |
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| 4 |  | Fra1(bZIP)/BT549-Fra1-ChIP-Seq(GSE46166)/Homer | 1e-75 | -1.740e+02 | 0.0000 | 1072.0 | 27.44% | 7183.5 | 15.79% | motif file (matrix) |
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| 5 |  | Atf3(bZIP)/GBM-ATF3-ChIP-Seq(GSE33912)/Homer | 1e-73 | -1.687e+02 | 0.0000 | 1198.0 | 30.66% | 8453.4 | 18.58% | motif file (matrix) |
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| 6 |  | BATF(bZIP)/Th17-BATF-ChIP-Seq(GSE39756)/Homer | 1e-65 | -1.515e+02 | 0.0000 | 1188.0 | 30.41% | 8613.2 | 18.93% | motif file (matrix) |
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| 7 |  | AP-1(bZIP)/ThioMac-PU.1-ChIP-Seq(GSE21512)/Homer | 1e-62 | -1.442e+02 | 0.0000 | 1264.0 | 32.35% | 9480.2 | 20.83% | motif file (matrix) |
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| 8 |  | Fosl2(bZIP)/3T3L1-Fosl2-ChIP-Seq(GSE56872)/Homer | 1e-61 | -1.416e+02 | 0.0000 | 696.0 | 17.81% | 4206.7 | 9.24% | motif file (matrix) |
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| 9 |  | Jun-AP1(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer | 1e-57 | -1.325e+02 | 0.0000 | 537.0 | 13.74% | 2970.8 | 6.53% | motif file (matrix) |
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| 10 |  | Meis1(Homeobox)/MastCells-Meis1-ChIP-Seq(GSE48085)/Homer | 1e-57 | -1.314e+02 | 0.0000 | 2300.0 | 58.87% | 20975.0 | 46.09% | motif file (matrix) |
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| 11 |  | Egr2(Zf)/Thymocytes-Egr2-ChIP-Seq(GSE34254)/Homer | 1e-49 | -1.133e+02 | 0.0000 | 300.0 | 7.68% | 1320.7 | 2.90% | motif file (matrix) |
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| 12 |  | Tbx5(T-box)/HL1-Tbx5.biotin-ChIP-Seq(GSE21529)/Homer | 1e-24 | -5.646e+01 | 0.0000 | 3073.0 | 78.65% | 32488.7 | 71.40% | motif file (matrix) |
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| 13 |  | Bach2(bZIP)/OCILy7-Bach2-ChIP-Seq(GSE44420)/Homer | 1e-23 | -5.319e+01 | 0.0000 | 368.0 | 9.42% | 2471.5 | 5.43% | motif file (matrix) |
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| 14 |  | Pbx3(Homeobox)/GM12878-PBX3-ChIP-Seq(GSE32465)/Homer | 1e-23 | -5.299e+01 | 0.0000 | 457.0 | 11.70% | 3284.4 | 7.22% | motif file (matrix) |
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| 15 |  | Oct4(POU,Homeobox)/mES-Oct4-ChIP-Seq(GSE11431)/Homer | 1e-19 | -4.537e+01 | 0.0000 | 747.0 | 19.12% | 6277.4 | 13.80% | motif file (matrix) |
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| 16 |  | Lhx2(Homeobox)/HFSC-Lhx2-ChIP-Seq(GSE48068)/Homer | 1e-18 | -4.156e+01 | 0.0000 | 1492.0 | 38.19% | 14355.4 | 31.55% | motif file (matrix) |
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| 17 |  | Tbet(T-box)/CD8-Tbet-ChIP-Seq(GSE33802)/Homer | 1e-17 | -4.113e+01 | 0.0000 | 1413.0 | 36.17% | 13497.0 | 29.66% | motif file (matrix) |
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| 18 |  | Eomes(T-box)/H9-Eomes-ChIP-Seq(GSE26097)/Homer | 1e-17 | -3.975e+01 | 0.0000 | 2439.0 | 62.43% | 25324.3 | 55.65% | motif file (matrix) |
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| 19 |  | Znf263(Zf)/K562-Znf263-ChIP-Seq(GSE31477)/Homer | 1e-12 | -2.855e+01 | 0.0000 | 2011.0 | 51.47% | 20813.9 | 45.74% | motif file (matrix) |
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| 20 |  | CHR(?)/Hela-CellCycle-Expression/Homer | 1e-11 | -2.709e+01 | 0.0000 | 905.0 | 23.16% | 8505.8 | 18.69% | motif file (matrix) |
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| 21 |  | Atf4(bZIP)/MEF-Atf4-ChIP-Seq(GSE35681)/Homer | 1e-11 | -2.595e+01 | 0.0000 | 385.0 | 9.85% | 3150.3 | 6.92% | motif file (matrix) |
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| 22 |  | Rfx2(HTH)/LoVo-RFX2-ChIP-Seq(GSE49402)/Homer | 1e-10 | -2.511e+01 | 0.0000 | 153.0 | 3.92% | 991.7 | 2.18% | motif file (matrix) |
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| 23 |  | Rbpj1(?)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer | 1e-9 | -2.263e+01 | 0.0000 | 1809.0 | 46.30% | 18794.4 | 41.30% | motif file (matrix) |
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| 24 |  | PBX1(Homeobox)/MCF7-PBX1-ChIP-Seq(GSE28007)/Homer | 1e-9 | -2.206e+01 | 0.0000 | 153.0 | 3.92% | 1036.1 | 2.28% | motif file (matrix) |
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| 25 |  | RFX(HTH)/K562-RFX3-ChIP-Seq(SRA012198)/Homer | 1e-9 | -2.074e+01 | 0.0000 | 133.0 | 3.40% | 880.9 | 1.94% | motif file (matrix) |
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| 26 |  | NF1-halfsite(CTF)/LNCaP-NF1-ChIP-Seq(Unpublished)/Homer | 1e-8 | -1.951e+01 | 0.0000 | 1827.0 | 46.76% | 19180.4 | 42.15% | motif file (matrix) |
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| 27 |  | MyoD(bHLH)/Myotube-MyoD-ChIP-Seq(GSE21614)/Homer | 1e-8 | -1.920e+01 | 0.0000 | 919.0 | 23.52% | 8996.6 | 19.77% | motif file (matrix) |
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| 28 |  | NF-E2(bZIP)/K562-NFE2-ChIP-Seq(GSE31477)/Homer | 1e-8 | -1.917e+01 | 0.0000 | 116.0 | 2.97% | 755.4 | 1.66% | motif file (matrix) |
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| 29 |  | Rfx1(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer | 1e-7 | -1.756e+01 | 0.0000 | 287.0 | 7.35% | 2401.0 | 5.28% | motif file (matrix) |
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| 30 |  | MafA(bZIP)/Islet-MafA-ChIP-Seq(GSE30298)/Homer | 1e-7 | -1.697e+01 | 0.0000 | 1102.0 | 28.21% | 11127.7 | 24.45% | motif file (matrix) |
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| 31 |  | CArG(MADS)/PUER-Srf-ChIP-Seq(Sullivan et al.)/Homer | 1e-7 | -1.668e+01 | 0.0000 | 410.0 | 10.49% | 3675.7 | 8.08% | motif file (matrix) |
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| 32 |  | X-box(HTH)/NPC-H3K4me1-ChIP-Seq(GSE16256)/Homer | 1e-7 | -1.665e+01 | 0.0000 | 176.0 | 4.50% | 1344.2 | 2.95% | motif file (matrix) |
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| 33 |  | Lhx3(Homeobox)/Neuron-Lhx3-ChIP-Seq(GSE31456)/Homer | 1e-6 | -1.579e+01 | 0.0000 | 1962.0 | 50.22% | 20978.4 | 46.10% | motif file (matrix) |
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| 34 |  | Nrf2(bZIP)/Lymphoblast-Nrf2-ChIP-Seq(GSE37589)/Homer | 1e-6 | -1.485e+01 | 0.0000 | 92.0 | 2.35% | 609.9 | 1.34% | motif file (matrix) |
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| 35 |  | Oct2(POU,Homeobox)/Bcell-Oct2-ChIP-Seq(GSE21512)/Homer | 1e-6 | -1.448e+01 | 0.0000 | 445.0 | 11.39% | 4121.5 | 9.06% | motif file (matrix) |
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| 36 |  | Myf5(bHLH)/GM-Myf5-ChIP-Seq(GSE24852)/Homer | 1e-6 | -1.426e+01 | 0.0000 | 843.0 | 21.58% | 8417.2 | 18.50% | motif file (matrix) |
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| 37 |  | STAT6(Stat)/Macrophage-Stat6-ChIP-Seq(GSE38377)/Homer | 1e-6 | -1.409e+01 | 0.0000 | 749.0 | 19.17% | 7398.6 | 16.26% | motif file (matrix) |
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| 38 |  | Pit1+1bp(Homeobox)/GCrat-Pit1-ChIP-Seq(GSE58009)/Homer | 1e-5 | -1.334e+01 | 0.0000 | 515.0 | 13.18% | 4910.4 | 10.79% | motif file (matrix) |
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| 39 |  | PRDM9(Zf)/Testis-DMC1-ChIP-Seq(GSE35498)/Homer | 1e-5 | -1.290e+01 | 0.0000 | 535.0 | 13.69% | 5144.5 | 11.31% | motif file (matrix) |
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| 40 |  | TEAD(TEA)/Fibroblast-PU.1-ChIP-Seq(Unpublished)/Homer | 1e-5 | -1.287e+01 | 0.0000 | 852.0 | 21.81% | 8595.2 | 18.89% | motif file (matrix) |
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| 41 |  | CEBP(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer | 1e-5 | -1.164e+01 | 0.0001 | 779.0 | 19.94% | 7864.2 | 17.28% | motif file (matrix) |
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| 42 |  | Brachyury(T-box)/Mesoendoderm-Brachyury-ChIP-exo(GSE54963)/Homer | 1e-4 | -1.120e+01 | 0.0001 | 427.0 | 10.93% | 4070.4 | 8.95% | motif file (matrix) |
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| 43 |  | Tcf12(bHLH)/GM12878-Tcf12-ChIP-Seq(GSE32465)/Homer | 1e-4 | -1.120e+01 | 0.0001 | 1050.0 | 26.87% | 10904.6 | 23.96% | motif file (matrix) |
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| 44 |  | Atoh1(bHLH)/Cerebellum-Atoh1-ChIP-Seq(GSE22111)/Homer | 1e-4 | -1.117e+01 | 0.0001 | 1268.0 | 32.45% | 13361.8 | 29.36% | motif file (matrix) |
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| 45 |  | MyoG(bHLH)/C2C12-MyoG-ChIP-Seq(GSE36024)/Homer | 1e-4 | -1.046e+01 | 0.0002 | 1165.0 | 29.82% | 12250.4 | 26.92% | motif file (matrix) |
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| 46 |  | Bach1(bZIP)/K562-Bach1-ChIP-Seq(GSE31477)/Homer | 1e-4 | -1.039e+01 | 0.0002 | 96.0 | 2.46% | 722.0 | 1.59% | motif file (matrix) |
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| 47 |  | Tbox:Smad(T-box,MAD)/ESCd5-Smad2_3-ChIP-Seq(GSE29422)/Homer | 1e-4 | -1.038e+01 | 0.0002 | 278.0 | 7.12% | 2538.9 | 5.58% | motif file (matrix) |
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| 48 |  | CEBP:AP1(bZIP)/ThioMac-CEBPb-ChIP-Seq(GSE21512)/Homer | 1e-4 | -1.015e+01 | 0.0002 | 882.0 | 22.57% | 9100.1 | 20.00% | motif file (matrix) |
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| 49 |  | RORgt(NR)/EL4-RORgt.Flag-ChIP-Seq(GSE56019)/Homer | 1e-4 | -9.706e+00 | 0.0003 | 181.0 | 4.63% | 1568.3 | 3.45% | motif file (matrix) |
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| 50 |  | Tbx20(T-box)/Heart-Tbx20-ChIP-Seq(GSE29636)/Homer | 1e-4 | -9.230e+00 | 0.0005 | 302.0 | 7.73% | 2835.9 | 6.23% | motif file (matrix) |
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| 51 |  | STAT6(Stat)/CD4-Stat6-ChIP-Seq(GSE22104)/Homer | 1e-3 | -9.120e+00 | 0.0006 | 716.0 | 18.33% | 7328.0 | 16.10% | motif file (matrix) |
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| 52 |  | NFAT:AP1(RHD,bZIP)/Jurkat-NFATC1-ChIP-Seq(Jolma et al.)/Homer | 1e-3 | -8.833e+00 | 0.0007 | 248.0 | 6.35% | 2286.3 | 5.02% | motif file (matrix) |
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| 53 |  | TATA-Box(TBP)/Promoter/Homer | 1e-3 | -8.572e+00 | 0.0009 | 1620.0 | 41.46% | 17597.2 | 38.67% | motif file (matrix) |
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| 54 |  | NFAT(RHD)/Jurkat-NFATC1-ChIP-Seq(Jolma et al.)/Homer | 1e-3 | -8.169e+00 | 0.0014 | 1050.0 | 26.87% | 11134.9 | 24.47% | motif file (matrix) |
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| 55 |  | Nkx6.1(Homeobox)/Islet-Nkx6.1-ChIP-Seq(GSE40975)/Homer | 1e-3 | -7.666e+00 | 0.0022 | 2602.0 | 66.60% | 29149.2 | 64.06% | motif file (matrix) |
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| 56 |  | Atf1(bZIP)/K562-ATF1-ChIP-Seq(GSE31477)/Homer | 1e-2 | -6.810e+00 | 0.0052 | 797.0 | 20.40% | 8402.5 | 18.47% | motif file (matrix) |
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| 57 |  | Gfi1b(Zf)/HPC7-Gfi1b-ChIP-Seq(GSE22178)/Homer | 1e-2 | -6.765e+00 | 0.0053 | 812.0 | 20.78% | 8574.9 | 18.84% | motif file (matrix) |
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| 58 |  | TEAD4(TEA)/Tropoblast-Tead4-ChIP-Seq(GSE37350)/Homer | 1e-2 | -6.492e+00 | 0.0069 | 1002.0 | 25.65% | 10740.5 | 23.60% | motif file (matrix) |
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| 59 |  | MafF(bZIP)/HepG2-MafF-ChIP-Seq(GSE31477)/Homer | 1e-2 | -6.418e+00 | 0.0073 | 360.0 | 9.21% | 3597.6 | 7.91% | motif file (matrix) |
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| 60 |  | PAX3:FKHR-fusion(Paired,Homeobox)/Rh4-PAX3:FKHR-ChIP-Seq(GSE19063)/Homer | 1e-2 | -6.123e+00 | 0.0096 | 285.0 | 7.29% | 2803.3 | 6.16% | motif file (matrix) |
pdf |
| 61 |  | Isl1(Homeobox)/Neuron-Isl1-ChIP-Seq(GSE31456)/Homer | 1e-2 | -5.957e+00 | 0.0112 | 2133.0 | 54.59% | 23821.2 | 52.35% | motif file (matrix) |
pdf |
| 62 |  | c-Jun-CRE(bZIP)/K562-cJun-ChIP-Seq(GSE31477)/Homer | 1e-2 | -5.751e+00 | 0.0135 | 360.0 | 9.21% | 3638.8 | 8.00% | motif file (matrix) |
pdf |
| 63 |  | ETS:E-box(ETS,bHLH)/HPC7-Scl-ChIP-Seq(GSE22178)/Homer | 1e-2 | -5.675e+00 | 0.0144 | 142.0 | 3.63% | 1308.6 | 2.88% | motif file (matrix) |
pdf |
| 64 |  | CLOCK(bHLH)/Liver-Clock-ChIP-Seq(GSE39860)/Homer | 1e-2 | -5.635e+00 | 0.0147 | 629.0 | 16.10% | 6621.5 | 14.55% | motif file (matrix) |
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| 65 |  | Klf4(Zf)/mES-Klf4-ChIP-Seq(GSE11431)/Homer | 1e-2 | -5.451e+00 | 0.0174 | 368.0 | 9.42% | 3745.7 | 8.23% | motif file (matrix) |
pdf |
| 66 |  | Hoxb4(Homeobox)/ES-Hoxb4-ChIP-Seq(GSE34014)/Homer | 1e-2 | -5.047e+00 | 0.0257 | 253.0 | 6.48% | 2518.1 | 5.53% | motif file (matrix) |
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| 67 |  | RBPJ:Ebox(?,bHLH)/Panc1-Rbpj1-ChIP-Seq(GSE47459)/Homer | 1e-2 | -4.994e+00 | 0.0267 | 407.0 | 10.42% | 4206.1 | 9.24% | motif file (matrix) |
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| 68 |  | EBNA1(EBV virus)/Raji-EBNA1-ChIP-Seq(GSE30709)/Homer | 1e-2 | -4.870e+00 | 0.0298 | 28.0 | 0.72% | 196.2 | 0.43% | motif file (matrix) |
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| 69 |  | HRE(HSF)/HepG2-HSF1-ChIP-Seq(GSE31477)/Homer | 1e-2 | -4.864e+00 | 0.0298 | 221.0 | 5.66% | 2183.8 | 4.80% | motif file (matrix) |
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| 70 |  | HRE(HSF)/Striatum-HSF1-ChIP-Seq(GSE38000)/Homer | 1e-2 | -4.703e+00 | 0.0342 | 343.0 | 8.78% | 3522.2 | 7.74% | motif file (matrix) |
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| 71 |  | c-Myc(bHLH)/LNCAP-cMyc-ChIP-Seq(Unpublished)/Homer | 1e-2 | -4.610e+00 | 0.0370 | 429.0 | 10.98% | 4479.4 | 9.84% | motif file (matrix) |
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