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Matrix Family Library Version 7.0

[New weight matrices] [Matrices moved to other families] [Matrices renamed] [Matrices modified]
[Changes in previous release] [View all matrices]

Matrix Family Library Version 7.0 (October 2007) contains 773 weight matrices in 306 families classified into the following groups:

The vertebrate group represents binding site descriptions of 4040 transcription factors: The plant group represents binding site descriptions of 617 transcription factors from several plant species.


New weight matrices

Vertebrates

Family Family Information Matrix Name Matrix Information
V$AHRR AHR-arnt heterodimers and AHR-related factors V$AHRARNT.03 DRE (dioxin response elements), XRE (xenobiotic response elements) bound by AHR/ARNT heterodimers
V$AP1R MAF and AP1 related factors V$MARE.01 Maf response elements, half sites
V$MARE.02 Binding sites for homodimers of large Maf-proteins
V$MARE.03 Binding sites for heterodimers with small Maf-proteins
V$BRAC Brachyury gene, mesoderm developmental factor V$TBOX.01 T-box transcription factor binding sites
V$TBX6.01 T-Box family transcription factor
V$CHOP C/EBP homologous protein (CHOP) V$CHOP.02 Heterodimers of CHOP and C/EBPalpha
V$CTCF CTCF and BORIS gene family, transcriptional regulators with 11 highly conserved zinc finger domains V$CTCF.01 CCCTC-binding factor
V$ETSF Human and murine ETS1 factors V$PEA3.01 Polyomavirus enhancer A binding protein 3, ETV4 (Ets variant gene 4)
V$FAST FAST-1 SMAD interacting proteins V$FAST1.02 Forkhead box H1 (Foxh1)
V$HIFF Hypoxia inducible factor, bHLH/PAS protein family V$HRE.01 Hypoxia response elements, binding sites for HIF1alpha/ARNT heterodimers
V$HOMF Homeodomain transcription factors V$DLX3.02 Distal-less homeobox 3
V$HHEX.01 Hematopoietically expressed homeobox, proline-rich homeodomain protein
V$LHXF Lim homeodomain factors V$LHX3.02 LIM-homeodomain transcription factor LHX3
V$MYOD Myoblast determining factors V$MYOGENIN.02 Myogenic bHLH protein myogenin (myf4)
V$MZF1 Myeloid zinc finger 1 factors V$MZF1.03 Myeloid zinc finger protein MZF1
V$NKX6 NK6 homeobox transcription factors V$NKX61.01 NK6 homeobox 1
V$NKX61.02 NK6 homeobox 1
V$NKXH NKX homeodomain factors V$NKX25.03 Homeodomain factor Nkx-2.5/Csx
V$NOLF Neuron-specific-olfactory factor V$OLF1.02 Olfactory neuron-specific factor
V$NR2F Nuclear receptor subfamily 2 factors V$COUP.02 Chicken ovalbumin upstream promoter (COUP-TF), DR0 sites
V$OCT1 Octamer binding protein V$OCT3_4.01 POU domain, class 5, transcription factor 1
V$SMAD Vertebrate SMAD family of transcription factors V$SMAD.01 Sma- and Mad-related proteins
V$SORY SOX/SRY-sex/testis determinig and related HMG box factors V$SOX9.02 SRY (sex-determining region Y) box 9
V$XBBF X-box binding factors V$XBOX.01 Motif bound by regulatory factor X (RFX) proteins
V$ZFHX Two-handed zinc finger homeodomain transcription factors V$DELTAEF1.02 Delta-crystallin enhancer binding factor, transcription factor 8, zin c finger homeobox 1a


Plants

Family Family Information Matrix Name Matrix Information
P$AHBP Arabidopsis homeobox protein P$BLR.01 Transcriptional repressor BELLRINGER
P$L1BX L1 box, motif for L1 layer-specific expression P$ATML1.02 Arabidopsis thaliana meristem layer 1
P$HDG9.01 Homeodomain glabrous 9
P$PDF2.01 Protodermal factor 2
P$MYBS MYB proteins with single DNA binding repeat P$ZMMRP1.01 Zea mays MYB-related protein 1 (transfer cell specific)
P$ROOT Root hair-specific cis-elements in angiosperms P$RHE.01 Root hair-specific element with a 2-nucleotid spacer between left part (LP) and right part (RP)
P$RHE.02 Root hair-specific element with a 3-nucleotid spacer between left part (LP) and right part (RP)
P$SUCB Sucrose box P$SUCROSE.01 Sequence motif from the promoters of different sugar-responsive genes


Insects

Family Family Information Matrix Name Matrix Information
I$DWHN Drosophila winged-helix nude I$DWHN.01 Drosophila winged-helix nude (Whn)-like transcription factor


Other Functional Elements

Family Family Information Matrix Name Matrix Information
O$TF2B RNA polymerase II transcription factor II B O$BRE.01 Transcription factor II B (TFIIB) recognition element



Weight matrices moved to other families


Weight matrices renamed

The following weight matrices have been renamed:

Weight matrices modified

The following weight matrices have been replaced by better matrices: