Motif prediction to distinguish LPS-stimulated pro-inflammatory vs. antibacterial macrophage genes

Immunome Research

Table 3 Biologically validated target genes of profile TFs predicted from the pro-inflammatory gene set.

Matrix Accession Number	TF	Target Genes
M01014	Sox5	Smad5, Smad1, Smad7, Sox6, Sox5, Mir125b2, Mir34a, Mir224, Mir15a, Mir125b1, Lipe, Sry
M01014	SRY	Slc9a3r2, Wt1, Akr1b10, Zfp748, Hdac3, Smad3, Ar, Importin beta, Ep300, Kpnb1, Kpna, Znf208, Sry, Amh, Ptgds
M00699	IRF-8	Spi1, Irf1, Trim21, Cops2, Irf2, Il12b, Il1b, Cybb, B2 m, Cbl, Irf4, Nfatc1, Ttraf6, Stat1, Etv6, beta2-mg, Cdkn2b, Il-12 p40, H-2Dd, H-2Kb, H-2Ld
M01014	Sox13	Smad7, Fgf3
M01014	Sox4	Mir199a1, Mir27b, Mir199a2, Mir206, Mir29c, Mir107, Mir34a, Mir95, Mir17, Mir199b, Mirn292, Mirn101b, Cebpa, Sdcbp, Tcf4
M01014	Sox2	Pou5f1, Pou2f1, Pax6, Lbx1, Pdx1, Meis1, Asc, Golga6, Nkx2-3, Otp, Dlx5, Otx1, Dlx4, Isl1, Zfhx3, Fbxo15, Fgf4, Hrc, Nanog, Spp1, Zscan10
M01014	Sox9	Ep300, Nr5a1, Kpnb1, Crebbp, Smad3, Smad2, Amh, Mia, Med12, Maf, Importin beta, Calmodulin, Ppargc1a, Ncadherin, Col2a1
M01014	Sox15	Fhl3, Pou5f1
M00233	Mef-2	Smarca4, Hdac4, Hdac9, Hdac7, Hdac5, Nfat, Mapk14, Thra, Ep300, Ckm, Myog, Mef2 d, Jun, Slc2a4, Srf, Mck
M00062	IRF-1	Agtr2, C2ta, Nos2, H-2kb, Ptgs2, Tlr3, H2-Dd, IL-12, IL-7R, Stat1, Ciita, Nfkb1, Rela, Stat5, Tap1, Vcam1, Psmb9, Ifnb1, Stat3, Irf8, Crebbp, Smarca4, Cybb
M01014	Sox6	Cenpk, Sox5, Dazap2, Hdac1, Ctnnb1, Pdx1, Ctbp2, Mir29a, Mir221, Mir222, Mir29c, Mir126, Ccnd1, Fgf3, Hbb-y
M01014	Sox18	Mef2c, Vcam1

* Highlighted genes showed expression pattern as in Figure 5.
Profile TFs corresponding to the predicted motifs are searched against the TRANSFAC [14] and IPA [15] databases and the various target genes known to be associated with these profile TFs are listed. All profile TFs for each motif (Matrix Accession Number) in the databases are shown.