Genomatix-Logo
Overview of Help-Pages
GEMS Launcher Logo

Matrix Family Library Version 2.2

[New weight matrices] [Matrix family changes]
[Matrix families renamed] [Weight matrices renamed]
[Changes in previous release]


Changes from Family Library Version 2.0 to Version 2.2


New weight matrices

Fungi

Family Family Information Matrix Name Matrix Information
F$MADS Yeast MADS-Box factors F$RLM1.01 Yeast MADS-Box RLM1 transcription factor
F$SMP1.01 Yeast MADS-Box SMP1 transcription factor

Insects

Family Family Information Matrix Name Matrix Information
I$DCAD Drosophila homeodomain protein caudal I$CAD.01 Drosophila homeodomain protein caudal, vertebrate homolog cdx
I$DHOM Drosophila HOMeoproteins I$K50_HD.01 K50 type homeodomain site selected with drosophila orthodenticle (OTD) homeodomain
I$DHUB Drosophila gap gene hunchback I$HB.02 Hunchback, early maternal and zygotic zinc finger gene, activated by bicoid
I$DKNI Drosophila segmentation gene knirps I$KNI.01 Drosophila gap gene knirps, involved in embryonic segmentation
I$DTLL Drosophila segmentation gene tailless I$TLL.01 Drosophila gap gene tailless, involved in embryonic segmentation
I$PRDH Paired homeodomain factors I$PAX6_HD.01 Drosophila PAX6 P3 homeodomain binding site
I$PRD_HD.01 Drosophila paired homeodomain

Plants

Family Family Information Matrix Name Matrix Information
P$IBOX Plant I-Box sites P$IBOX.01 I-Box in rbcS genes and other light regulated genes

Vertebrates

Family Family Information Matrix Name Matrix Information
V$BRAC Brachyury gene, mesoderm developmental factor V$TBX5.01 T-Box factor 5 site (TBX5), mutations related to Holt-Oram syndrome
V$GREF Glucocorticoid responsive and related elements V$ARE.01 Androgene receptor binding site
V$PRE.01 Progesterone receptor binding site
V$MYOD MYOblast Determining factor V$MYF5.01 Myf5 myogenic bHLH protein
V$NKXH NKX - Homeodomain sites V$NKX31.01 prostate-specific homeodomain protein NKX3.1
V$OAZF Olfactory associated zinc finger protein V$ROAZ.01 Rat C2H2 Zn finger protein involved in olfactory neuronal differentiation
V$PAX8 PAX-2/5/8 binding sites V$PAX8.01 PAX 2/5/8 binding site
V$RBIT Regulator of B-Cell IgH transcription V$BRIGHT.01 Bright, B cell regulator of IgH transcription
V$TEAF TEA/ATTS DNA binding domain factors V$TEF1.01 TEF-1 related muscle factor
V$TTFF Thyroid transcription factor-1 V$TTF1.01 Thyroid transcription factor-1 (TTF1) binding site


Matrix family changes


Matrix families renamed

The following matrix families have been renamed because of previously misleading family names:


Weight matrices renamed

Fungi

Old name Renamed to  
Old name Renamed to
F$FACBCA_Q2 F$FACBCA.01
F$FACBCB_Q2 F$FACBCB.01
F$ABAA_01 F$ABAA.01
F$STUAP_01 F$STUAP.01
F$UAY_01 F$UAY.01
F$HAP1_B F$HAP1.01
F$LEU3_B F$LEU3.01
F$LAC9_C F$LAC9.01
F$MAT1MC_02 F$MAT1MC.01
F$DDE1_B F$DDE1.01
F$REB1_B F$REB1.01
F$XBP1_B F$XBP1.01
F$MAT1MC_01 F$STE11.02
F$STE11_01 F$STE11.01
F$ABF_C F$ABF1.01
F$ABF1_01 F$ABF1.02
F$ADR1_01 F$ADR1.01
F$HAP234_01 F$HAP234.01
F$CBF1_B3 F$CBF1.01
F$GAL4_C F$GAL4.01
F$GAL4_01 F$GAL4.02
F$GCN4 F$GCN4.01
F$GCN4_C F$GCN4.02
F$GCR1_01 F$GCR1.01
F$GCR1_B F$GCR1.02
F$HSF_02 F$HSF.01
F$HSF_03 F$HSF.02
F$HSF_04 F$HSF.03
F$HSF_05 F$HSF.04
F$MATA1_01 F$MATA1.01
F$MCM1_01 F$MCM1.01
F$MIG1_01 F$MIG1.01
F$NIT2_01 F$NIT2.01
F$PACC_01 F$PACC.01
F$PHO4_01 F$PHO4.01
F$QA1F_01 F$QA1F.01
F$RAP1_C F$RAP1.01
F$REPCAR1_01 F$REPCAR1.01
F$STRE_B F$STRE.01
F$STRE_01 F$STRE.02

Insects

Old name Renamed to  
Old name Renamed to
I$ADF1_Q6 I$ADF1.01
I$BRCZ4_01 I$BRCZ4.01
I$BRCZ2_01 I$BRCZ2.01
I$BRCZ1_01 I$BRCZ1.01
I$CF1_02 I$CF1.01
I$CF2II_01 I$CF2II.01
I$CF2II_02 I$CF2II.02
I$CROC_01 I$CROC.01
I$DL_01 I$DL.01
I$DL_02 I$DL.02
I$E74A_01 I$E74A.01
I$ELF1_01 I$ELF1.01
I$GCM_01 I$GCM.01
I$HAIRY_01 I$HAIRY.01
I$BCD_01 I$BCD.01
I$FTZ_01 I$FTZ.01
I$DFD_01 I$DFD.01
I$HSF_02 I$HSF.01
I$HSF_03 I$HSF.02
I$HSF_04 I$HSF.03
I$HSF_05 I$HSF.04
I$HB_01 I$HB.01
I$KR_01 I$KR.01
I$STAT_01 I$STAT.01
I$SUH_01 I$SUH.01
I$dTCF_1 I$DTCF.01
I$TTK69_01 I$TTK.01
I$SN_01 I$SN.01
I$SN_02 I$SN.02
I$ZESTE_Q2 I$ZESTE.01

Miscellaneous

Old name Renamed to  
Old name Renamed to
B$CRP_C B$CRP.01
N$CES2_01 N$CES2.01
N$SKN1_01 N$SKN1.01
N$SKN1_02 N$SKN1.02

Plants

Old name Renamed to  
Old name Renamed to
P$ABF1_01 P$ABF1.01
P$ABF1_02 P$ABF1.02
P$ABF1_03 P$ABF1.03
P$DOF1_01 P$DOF1.01
P$DOF2_01 P$DOF2.01
P$DOF3_01 P$DOF3.01
P$PBF_01 P$PBF.01
P$AG_01 P$AG.01
P$AGL3_01 P$AGL3.01
P$AGL3_02 P$AGL3.02
P$ATHB1_01 P$ATHB1.01
P$CPRF_Q2 P$CPRF.01
P$CPRF2_Q2 P$CPRF2.01
P$EMBP1A_Q2 P$EMBP1A.01
P$HBP1A_Q2 P$HBP1A.01
P$CPRF3_Q2 P$CPRF3.01
P$TAF1_Q2 P$TAF1.01
P$TGA1A_Q2 P$TGA1A.01
P$TGA1B_Q2 P$TGA1B.01
P$CDC5_01 P$CDC5.01
P$GBP_Q6 P$GBP.01
P$BZIP910_01 P$BZIP910.01
P$BZIP910_02 P$BZIP910.02
P$BZIP911_01 P$BZIP911.01
P$BZIP911_02 P$BZIP911.02
P$MADSA_Q2 P$MADSA.01
P$MADSB_Q2 P$MADSB.01
P$P_01 P$P_ACT.01
P$GAMYB_01 P$GAMYB.01
P$MYBPH3_01 P$MYBPH3.01
P$MYBPH3_02 P$MYBPH3.02
P$O2_02 P$O2.02
P$O2_03 P$O2.03
P$O2_01 P$O2.01
P$SBF1_01 P$SBF1.01
P$RAV1_02 P$RAV1-3.01
P$RAV1_01 P$RAV1-5.01


Vertebrates

Old name Renamed to  
Old name Renamed to
V$AHRARNT_01 V$AHRARNT.01
V$AHR_01 V$AHR.01
V$AHRARNT_02 V$AHRARNT.02
V$AP1_C V$AP1.01
V$AP1_Q2 V$AP1.02
V$AP1_Q4 V$AP1.03
V$AP1FJ_Q2 V$AP1FJ.01
V$NFE2_01 V$NFE2.01
V$VMAF_01 V$VMAF.01
V$TCF11MAFG_01 V$TCF11MAFG.01
V$BEL1_B V$BEL1.01
V$AP2_Q6 V$AP2.01
V$AP4_Q5 V$AP4.01
V$AP4_Q6 V$AP4.02
V$TAL1ALPHAE47_01 V$TAL1ALPHAE47.01
V$TAL1BETAE47_01 V$TAL1BETAE47.01
V$TAL1BETAITF2_01 V$TAL1BETAITF2.01
V$AP4_01 V$AP4.03
V$AREB6_04 V$AREB6.04
V$AREB6_02 V$AREB6.02
V$AREB6_03 V$AREB6.03
V$AREB6_01 V$AREB6.01
V$ARP1_01 V$ARP1.01
V$BARBIE_01 V$BARBIE.01
V$BRACH_01 V$BRACH.01
V$BRN2_01 V$BRN2.01
V$CAAT_C V$CLTR_CAAT.01
V$CART1_01 V$CART1.01
V$CDPCR3HD_01 V$CDPCR3HD.01
V$CDX2_B V$CDX2.01
V$CEBPB_01 V$CEBPB.01
V$CEBP_C V$CEBP.02
V$CHOP_01 V$CHOP.01
V$CDP_01 V$CDP.01
V$CDP_02 V$CDP.02
V$CDPCR3_01 V$CDPCR3.01
V$CLOX_01 V$CLOX.01
V$CMYB_01 V$CMYB.01
V$COMP1_01 V$COMP1.01
V$COUP_01 V$COUP.01
V$CP2_01 V$CP2.01
V$CREBP1_01 V$CREBP1.01
V$CREBP1CJUN_01 V$CREBP1CJUN.01
V$CREB_01 V$CREB.01
V$HLF_01 V$HLF.01
V$E4BP4_01 V$E4BP4.01
V$CREB_02 V$CREB.02
V$CREB_Q2 V$CREB.03
V$CREB_Q4 V$CREB.04
V$CREBP1_Q2 V$CREBP1.02
V$ATF_B V$ATF.02
V$ATF_01 V$ATF.01
V$TAXCREB_01 V$TAXCREB.01
V$TAXCREB_02 V$TAXCREB.02
V$VJUN_01 V$VJUN.01
V$E2F_02 V$E2F.02
V$E2F_Q6 V$E2F.03
V$E2F_01 V$E2F.01
V$E2_01 V$E2.01
V$E2_Q6 V$E2.02
V$NKX25_01 V$NKX25.01
V$DELTAEF1_01 V$DELTAEF1.01
V$XBP1_01 V$XBP1.01
V$USF_C V$USF.02
V$USF_Q6 V$USF.03
V$MYCMAX_B V$MYCMAX.03
V$SREBP1_01 V$SREBP1.01
V$SREBP1_02 V$SREBP1.02
V$MYCMAX_02 V$MYCMAX.02
V$NMYC_01 V$NMYC.01
V$USF_01 V$USF.01
V$MYCMAX_01 V$MYCMAX.01
V$MAX_01 V$MAX.01
V$ARNT_01 V$ARNT.01
V$SRE_B V$SREBP.01
V$NFY_Q6 V$NFY.02
V$NFY_C V$NFY.03
V$NFY_01 V$NFY.01
V$EGR1_01 V$EGR1.01
V$EGR2_01 V$EGR2.01
V$EGR3_01 V$EGR3.01
V$NGFIC_01 V$NGFIC.01
V$WT1_B V$WT1.01
V$CETS1P54_01 V$CETS1P54.01
V$NRF2_01 V$NRF2.01
V$GABP_B V$GABP.01
V$ELK1_02 V$ELK1.02
V$ETS2_B V$ETS2.01
V$ETS1_B V$ETS1.01
V$ELK1_01 V$ELK1.01
V$PU1_B V$PU1.01
V$EVI1_06 V$EVI1.06
V$EVI1_02 V$EVI1.02
V$EVI1_03 V$EVI1.03
V$EVI1_05 V$EVI1.05
V$EVI1_04 V$EVI1.04
V$EVI1_01 V$EVI1.01
V$HNF3B_01 V$HNF3B.01
V$HFH1_01 V$HFH1.01
V$HFH2_01 V$HFH2.01
V$HFH3_01 V$HFH3.01
V$HFH8_01 V$HFH8.01
V$XFD1_01 V$XFD1.01
V$XFD2_01 V$XFD2.01
V$XFD3_01 V$XFD3.01
V$FREAC2_01 V$FREAC2.01
V$FREAC3_01 V$FREAC3.01
V$FREAC4_01 V$FREAC4.01
V$FREAC7_01 V$FREAC7.01
V$LMO2COM_02 V$LMO2COM.02
V$GATA1_05 V$GATA1.04
V$GATA1_06 V$GATA1.05
V$GATA2_02 V$GATA2.01
V$GATA2_03 V$GATA2.02
V$GATA3_02 V$GATA3.01
V$GATA3_03 V$GATA3.02
V$GATA_C V$GATA.01
V$GATA1_04 V$GATA1.03
V$GATA1_02 V$GATA1.01
V$GATA1_03 V$GATA1.02
V$GFI1_01 V$GFI1.01
V$GKLF_01 V$GKLF.01
V$GRE_C V$GRE.01
V$AML1_01 V$AML1.01
V$HSF1_01 V$HSF1.01
V$HEN1_01 V$HEN1.01
V$HEN1_02 V$HEN1.02
V$MTBF_B V$MTBF.01
V$NKX25_02 V$NKX25.02
V$S8_01 V$S8.01
V$HNF1_01 V$HNF1.01
V$HNF1_C V$HNF1.02
V$HNF4_01_B V$HNF4.01
V$HNF4_02_B V$HNF4.02
V$HOGNESS_B V$HOGNESS.01
V$HOX13_01 V$HOX1-3.01
V$IK2_01 V$IK2.01
V$IK1_01 V$IK1.01
V$IK3_01 V$IK3.01
V$IRF1_01 V$IRF1.01
V$IRF2_01 V$IRF2.01
V$ISRE_01 V$ISRE.01
V$LDSPOLYA_B V$LDSPOLYA.01
V$TAACC_B V$TAACC.01
V$LYF1_01 V$LYF1.01
V$TH1E47_01 V$TH1E47.01
V$MEF2_Q6 V$MEF2.05
V$MEF2_01 V$MEF2.01
V$HMEF2_Q6 V$HMEF2.01
V$MMEF2_Q6 V$MMEF2.01
V$RSRFC4_01 V$RSRFC4.01
V$RSRFC4_Q2 V$RSRFC4.02
V$AMEF2_Q6 V$AMEF2.01
V$MEF2_02 V$MEF2.02
V$MEF2_03 V$MEF2.03
V$MEF2_04 V$MEF2.04
V$MEF3_B V$MEF3.01
V$MINI20_B V$MUSCLE_INI.01
V$MINI19_B V$MUSCLE_INI.02
V$MUSCLE_INI_B V$MUSCLE_INI.03
V$MTF-1_B V$MTF-1.01
V$MYOD_Q6 V$MYOD.02
V$MYOD_01 V$MYOD.01
V$LMO2COM_01 V$LMO2COM.01
V$E47_01 V$E47.01
V$E47_02 V$E47.02
V$MYOGNF1_01 V$MYOGNF1.01
V$NF1_Q6 V$NF1.01
V$MYT1_02_B V$MYT1.02
V$MYT1_01_B V$MYT1.01
V$MZF1_01 V$MZF1.01
V$NFAT_Q6 V$NFAT.01
V$CREL_01 V$CREL.01
V$NFKAPPAB_01 V$NFKAPPAB.01
V$NFKAPPAB65_01 V$NFKAPPAB65.01
V$NFKAPPAB50_01 V$NFKAPPAB50.01
V$NFKB_C V$NFKAPPAB.02
V$NFKB_Q6 V$NFKAPPAB.03
V$OLF1_01 V$OLF1.01
V$NRSF_01 V$NRSF.01
V$NRSE_B V$NRSE.01
V$OCT1_B V$OCT1.02
V$OCT1_07 V$OCT1.06
V$OCT_C V$OCT.01
V$OCT1_06 V$OCT1.05
V$OCT1_05 V$OCT1.04
V$OCT1_Q6 V$OCT1.03
V$OCT1_01 V$OCT1.01
V$TST1_01 V$TST1.01
V$OCT1_02 V$OCT1P.01
V$P53_01 V$P53.01
V$PAX1_01 V$PAX1.01
V$PAX3 V$PAX3.01
V$PAX4_02 V$PAX4.01
V$PAX9_B V$PAX9.01
V$PAX5_01 V$PAX5.01
V$PAX5_02 V$PAX5.02
V$PAX6_01 V$PAX6.01
V$PBX1_02 V$PBX1.01
V$ACAAT_B V$ACAAT.01
V$CAAT_01 V$CAAT.01
V$PDX1_B V$PDX1.01
V$PPARA_01 V$PPARA.01
V$PIT1_B V$PIT1.01
V$RAR_B V$RAR.01
V$R_01 V$EBVR.01
V$RORA1_01 V$RORA1.01
V$RORA2_01 V$RORA2.01
V$ER_Q6 V$ER.01
V$PADS_C V$PADS.01
V$LPOLYA_B V$LPOLYA.01
V$DTYPEPA_B V$DTYPEPA.01
V$APOLYA_B V$APOLYA.01
V$POLY_C V$POLYA.01
V$RREB1_01 V$RREB1.01
V$SEF1_C V$SEF1.01
V$SF1_B V$SF1.01
V$SMAD3_B V$SMAD3.01
V$SMAD4_B V$SMAD4.01
V$SOX5_01 V$SOX5.01
V$SRY_02 V$SRY.01
V$SOX9_B1 V$SOX9.01
V$SP1_Q6 V$SP1.01
V$GC_01 V$GC.01
V$SRF_Q6 V$SRF.02
V$SRF_C V$SRF.03
V$SRF_01 V$SRF.01
V$STAT_01 V$STAT.01
V$STAT1_01 V$STAT1.01
V$STAT3_01 V$STAT3.01
V$T3R_01 V$T3R.01
V$TANTIGEN_B V$TANTIGEN.01
V$TATA_C V$TATA.02
V$ATATA_B V$ATATA.01
V$TATA_01 V$TATA.01
V$MTATA_B V$MTATA.01
V$TCF11_01 V$TCF11.01
V$VBP_01 V$VBP.01
V$VDR_RXR_B V$VDR_RXR.01
V$VDR_RXR2_B V$VDR_RXR.02
V$VMYB_02 V$VMYB.02
V$VMYB_01 V$VMYB.01
V$WHN_B V$WHN.01
V$RFX1_01 V$RFX1.01
V$RFX1_02 V$RFX1.02
V$MIF1_01 V$MIF1.01
V$STAF_02 V$STAF.02
V$STAF_01 V$STAF.01
V$YY1_02 V$YY1.01
V$ZID_01 V$ZID.01