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["Additional file 3. Surrogate ChIP-seq data for finding indirect regulated targets"]
[]
["Surrogate TFs (ChIP-seq)","Induced TFs",{"$nulls":10},"Reason"]
["ARNT","ARNT2",{"$nulls":10},"Same gene family"]
["ASCL1","ASCL2",{"$nulls":10},"Same gene family"]
["ATF1","ATF2","ATF3","ATF4",{"$nulls":8},"Same gene family"]
["ATF2","ATF1","ATF3","ATF4",{"$nulls":8},"Same gene family"]
["ATF3","ATF1","ATF2","ATF4",{"$nulls":8},"Same gene family"]
["ATF4","ATF1","ATF2","ATF3",{"$nulls":8},"Same gene family"]
["BARHL1","BARHL2",{"$nulls":10},"Same gene family"]
["CEBPA","CEBPB","CEBPD",{"$nulls":9},"Same gene family"]
["CEBPB","CEBPA","CEBPD",{"$nulls":9},"Same gene family"]
["CEBPD","CEBPA","CEBPB",{"$nulls":9},"Same gene family"]
["CHD1","CHD4","CHD5",{"$nulls":9},"Same gene family"]
["CHD4","CHD1","CHD5",{"$nulls":9},"Same gene family"]
["CHD5","CHD1","CHD4",{"$nulls":9},"Same gene family"]
["CREB1","CREB3",{"$nulls":10},"Same gene family"]
["CREB3","CREB1",{"$nulls":10},"Same gene family"]
["CTBP1","CTBP2",{"$nulls":10},"Same gene family"]
["CTBP2","CTBP1",{"$nulls":10},"Same gene family"]
["DMRT1","DMRT2","DMRTC2",{"$nulls":9},"Same gene family"]
["DLX1","DLX2","DLX3","DLX4","DLX5","DLX6",{"$nulls":6},"Same gene family"]
["E2F1","E2F3","E2F4","E2F5","E2F6","E2F7",{"$nulls":6},"Same gene family"]
["E2F4","E2F1","E2F3","E2F5","E2F6","E2F7",{"$nulls":6},"Same gene family"]
["E2F5","E2F1","E2F3","E2F4","E2F6","E2F7",{"$nulls":6},"Same gene family"]
["E2F6","E2F1","E2F3","E2F4","E2F5","E2F7",{"$nulls":6},"Same gene family"]
["E2F7","E2F1","E2F3","E2F4","E2F5","E2F6",{"$nulls":6},"Same gene family"]
["E2F8","E2F1","E2F3","E2F4","E2F5","E2F6","E2F7",{"$nulls":5},"Same gene family"]
["EGR1","EGR2",{"$nulls":10},"Same gene family"]
["EGR2","EGR1",{"$nulls":10},"Same gene family"]
["ESRRA","ESRRB","ESRRG",{"$nulls":9},"Same gene family"]
["FOS","FOSL1","FOSL2",{"$nulls":9},"Same gene family"]
["FOSL1","FOS","FOSL2",{"$nulls":9},"Same gene family"]
["FOSL2","FOS","FOSL1",{"$nulls":9},"Same gene family"]
["FOXA1","FOXA2",{"$nulls":10},"Same gene family"]
["FOXA2","FOXA1",{"$nulls":10},"Same gene family"]
["FOXD3","FOXD1","FOXD4L3",{"$nulls":9},"Same gene family"]
["FOXD2","FOXD1","FOXD4L3",{"$nulls":9},"Same gene family"]
["FOXP3","FOXP1",{"$nulls":10},"Same gene family"]
["GATA1","GATA2","GATA3","GATA6",{"$nulls":8},"Same gene family"]
["GATA2","GATA1","GATA3","GATA6",{"$nulls":8},"Same gene family"]
["GATA3","GATA1","GATA2","GATA6",{"$nulls":8},"Same gene family"]
["GATA4","GATA1","GATA2","GATA3","GATA6",{"$nulls":7},"Same gene family"]
["GATA6","GATA1","GATA2","GATA3",{"$nulls":8},"Same gene family"]
["GLI3","GLI1",{"$nulls":10},"Same gene family"]
["HDAC2","HDAC3","HDAC6","HDAC8",{"$nulls":8},"Same gene family"]
["HDAC3","HDAC2","HDAC6","HDAC8",{"$nulls":8},"Same gene family"]
["HDAC6","HDAC2","HDAC3","HDAC8",{"$nulls":8},"Same gene family"]
["HHDAC8","DAC2","HDAC3","HDAC6",{"$nulls":8},"Same gene family"]
["HES1","HES6",{"$nulls":10},"Same gene family"]
["HMGB2","HMGA1","HMGA2","HMGN1","HMGXB4",{"$nulls":7},"Same gene family"]
["HNF1A","HNF4A",{"$nulls":10},"Same gene family"]
["HNF4A","HNF1A",{"$nulls":10},"Same gene family"]
["HOXA1","HOXA2","HOXA3","HOXA7","HOXA9","HOXA10",{"$nulls":6},"Same gene family"]
["HOXA2","HOXA1","HOXA3","HOXA7","HOXA9","HOXA10",{"$nulls":6},"Same gene family"]
["HOXA7","HOXA1","HOXA2","HOXA3","HOXA9","HOXA10",{"$nulls":6},"Same gene family"]
["HOXA9","HOXA1","HOXA2","HOXA3","HOXA7","HOXA10",{"$nulls":6},"Same gene family"]
["HOXC5","HOXC9",{"$nulls":10},"Same gene family"]
["HOXC9","HOXC5",{"$nulls":10},"Same gene family"]
["ID3","ID1",{"$nulls":10},"Same gene family"]
["IKZF1","IKZF5",{"$nulls":10},"Same gene family"]
["IRX3","IRX2",{"$nulls":10},"Same gene family"]
["JUN","JUNB","JUND",{"$nulls":9},"Same gene family"]
["JUNB","JUN","JUND",{"$nulls":9},"Same gene family"]
["JUND","JUN","JUNB",{"$nulls":9},"Same gene family"]
["KLF1","KLF2","KLF3","KLF4","KLF5","KLF6","KLF8","KLF9","KLF11","KLF12","KLF14","KLF15","Same gene family"]
["KLF3","KLF1","KLF2","KLF4","KLF5","KLF6","KLF8","KLF9","KLF11","KLF12","KLF14","KLF15","Same gene family"]
["KLF4","KLF1","KLF2","KLF3","KLF5","KLF6","KLF8","KLF9","KLF11","KLF12","KLF14","KLF15","Same gene family"]
["KLF5","KLF1","KLF2","KLF3","KLF4","KLF6","KLF8","KLF9","KLF11","KLF12","KLF14","KLF15","Same gene family"]
["KLF6","KLF1","KLF2","KLF3","KLF4","KLF5","KLF8","KLF9","KLF11","KLF12","KLF14","KLF15","Same gene family"]
["KLF8","KLF1","KLF2","KLF3","KLF4","KLF5","KLF6","KLF9","KLF11","KLF12","KLF14","KLF15","Same gene family"]
["KLF9","KLF1","KLF2","KLF3","KLF4","KLF5","KLF6","KLF8","KLF11","KLF12","KLF14","KLF15","Same gene family"]
["KLF11","KLF1","KLF2","KLF3","KLF4","KLF5","KLF6","KLF8","KLF9","KLF12","KLF14","KLF15","Same gene family"]
["KLF12","KLF1","KLF2","KLF3","KLF4","KLF5","KLF6","KLF8","KLF9","KLF11","KLF14","KLF15","Same gene family"]
["KLF14","KLF1","KLF2","KLF3","KLF4","KLF5","KLF6","KLF8","KLF9","KLF11","KLF12","KLF15","Same gene family"]
["KLF15","KLF1","KLF2","KLF3","KLF4","KLF5","KLF6","KLF8","KLF9","KLF11","KLF12","KLF14","Same gene family"]
["LHX2","LHX3","LHX4","LHX1","LHX5",{"$nulls":7},"Same gene family"]
["LHX3","LHX2","LHX4","LHX1","LHX5",{"$nulls":7},"Same gene family"]
["LHX4","LHX2","LHX3","LHX1","LHX5",{"$nulls":7},"Same gene family"]
["LMO1","LMO2",{"$nulls":10},"Same gene family"]
["LMO2","LMO1",{"$nulls":10},"Same gene family"]
["MEF2A","MEF2C",{"$nulls":10},"Same gene family"]
["MEF2C","MEF2A",{"$nulls":10},"Same gene family"]
["MEIS1","MEIS2",{"$nulls":10},"Same gene family"]
["MYC","MYCN",{"$nulls":10},"Same gene family"]
["MYCN","MYC",{"$nulls":10},"Same gene family"]
["NEUROD1","NEUROD2","NEUROD4","NEUROD6","NEUROG1","NEUROG2","NEUROG3",{"$nulls":5},"Same gene family"]
["NEUROG2","NEUROD1","NEUROD2","NEUROD4","NEUROD6","NEUROG1","NEUROG3",{"$nulls":5},"Same gene family"]
["NEUROG3","NEUROD1","NEUROD2","NEUROD4","NEUROD6","NEUROG1","NEUROG2",{"$nulls":5},"Same gene family"]
["NKX2-1","NKX2-2","NKX2-5",{"$nulls":9},"Same gene family"]
["NKX2-2","NKX2-1","NKX2-5",{"$nulls":9},"Same gene family"]
["NKX2-5","NKX2-1","NKX2-2",{"$nulls":9},"Same gene family"]
["NR2F1","NR2F2",{"$nulls":10},"Same gene family"]
["NR2F2","NR2F1",{"$nulls":10},"Same gene family"]
["NR4A1","NR4A2",{"$nulls":10},"Same gene family"]
["OTX2","OTX1",{"$nulls":10},"Same gene family"]
["PBX3","PBX1",{"$nulls":10},"Same gene family"]
["PITX3","PITX2",{"$nulls":10},"Same gene family"]
["PPARG","PPARA",{"$nulls":10},"Same gene family"]
["PRDM1","PRDM2",{"$nulls":10},"Same gene family"]
["PRDM2","PRDM1",{"$nulls":10},"Same gene family"]
["RFX1","RFX2",{"$nulls":10},"Same gene family"]
["SALL1","SALL4",{"$nulls":10},"Same gene family"]
["RFX1","RFX2",{"$nulls":10},"Same gene family"]
["RFX2","RFX1",{"$nulls":10},"Same gene family"]
["RUNX1","RUNX3",{"$nulls":10},"Same gene family"]
["RUNX3","RUNX1",{"$nulls":10},"Same gene family"]
["SIRT6","SIRT3",{"$nulls":10},"Same gene family"]
["SIX1","SIX5",{"$nulls":10},"Same gene family"]
["SIX5","SIX1",{"$nulls":10},"Same gene family"]
["SMAD1","SMAD2","SMAD3","SMAD4","SMAD5","SMAD7",{"$nulls":6},"Same gene family"]
["SMAD2","SMAD1","SMAD3","SMAD4","SMAD5","SMAD7",{"$nulls":6},"Same gene family"]
["SMAD3","SMAD1","SMAD2","SMAD4","SMAD5","SMAD7",{"$nulls":6},"Same gene family"]
["SMAD4","SMAD1","SMAD2","SMAD3","SMAD5","SMAD7",{"$nulls":6},"Same gene family"]
["SMARCA4","SMARCB1",{"$nulls":10},"Same gene family"]
["SMARCB1","SMARCA4",{"$nulls":10},"Same gene family"]
["SNAPC1","SNAPC4",{"$nulls":10},"Same gene family"]
["SNAPC4","SNAPC1",{"$nulls":10},"Same gene family"]
["SPI1","SPIB",{"$nulls":10},"Same gene family"]
["SPIB","SPI1",{"$nulls":10},"Same gene family"]
["TEAD4","TEAD2",{"$nulls":10},"Same gene family"]
["TGIF2","TGIF1",{"$nulls":10},"Same gene family"]
["THAP1","THAP3","THAP7","THAP10","THAP11",{"$nulls":7},"Same gene family"]
["THAP11","THAP3","THAP7","THAP10","THAP1",{"$nulls":7},"Same gene family"]
["TLX1","TLX3",{"$nulls":10},"Same gene family"]
["ZBTB3","ZBTB7A","ZBTB33","ZBTB44","ZBTB45",{"$nulls":7},"Same gene family"]
["ZBTB7A","ZBTB3","ZBTB33","ZBTB44","ZBTB45",{"$nulls":7},"Same gene family"]
["ZBTB33","ZBTB3","ZBTB7A","ZBTB44","ZBTB45",{"$nulls":7},"Same gene family"]
["ZBTB44","ZBTB33","ZBTB3","ZBTB7A","ZBTB45",{"$nulls":7},"Same gene family"]
["BMI1","CBX2",{"$nulls":10},"Interaction"]
["CLOCK","CRY1","CRY2",{"$nulls":9},"Interaction"]
["CTNNB1","TCF12","TCF15","TCF7L2",{"$nulls":8},"Interaction"]
["LEF1","CTNNB1","TCF12","TCF15","TCF7L2",{"$nulls":7},"Interaction"]
["TCF12","CTNNB1",{"$nulls":10},"Interaction"]
["TCF7L2","CTNNB1",{"$nulls":10},"Interaction"]
["FOS","JUN","JUNB","JUND",{"$nulls":8},"Interaction"]
["FOSL2","JUN","JUNB","JUND",{"$nulls":8},"Interaction"]
["FOSL1","JUN","JUNB","JUND",{"$nulls":8},"Interaction"]
["JUN","FOS","FOSL1","FOSL2",{"$nulls":8},"Interaction"]
["JUNB","FOS","FOSL1","FOSL2",{"$nulls":8},"Interaction"]
["JUND","FOS","FOSL1","FOSL2",{"$nulls":8},"Interaction"]
["TRIM28","ZNF274",{"$nulls":10},"Interaction"]

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