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Matrix Family Library Version 8.4

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

Matrix Family Library Version 8.4 (June 2011) contains 1326 weight matrices in 407 families classified into the following groups:

The vertebrate group represents binding site descriptions of 7018 transcription factors: The plant group represents binding site descriptions of 1050 transcription factors from several plant species.

The fungi group represents binding site descriptions of 140 transcription factors from Saccharomyces cerevisiae and Schizosaccharomyces pombe.


New weight matrices

Vertebrates

Family Family Information Matrix Name Matrix Information
V$AP2F Activator protein 2 V$TCFAP2C.02 Transcription factor AP-2, gamma
V$BCDF Bicoid-like homeodomain transcription factors V$CRX.03 Cone-rod homeobox-containing transcription factor
V$BCL6 POZ domain zinc finger expressed in B-Cells V$BCL6.04 B-cell CLL/lymphoma 6, member B (BCL6B)
V$BRAC Brachyury gene, mesoderm developmental factor V$EOMES.03 Eomesodermin, TBR-2 (T-box, brain, 2)
V$CDXF Vertebrate caudal related homeodomain protein V$CDX2.03 Caudal type homeobox transcription factor 2
V$E2FF E2F-myc activator/cell cycle regulator V$E2F4.01 E2F transcription factor 4, p107/p130-binding protein
V$ETSF Human and murine ETS1 factors V$ELF4.01 E74-like factor 4
V$ELF5.01 E74-like factor 5
V$ELK3.01 ETS-domain protein (SRF accessory protein 2
V$ELK4.01 ETS-domain protein (SRF accessory protein 1)
V$ERG.01 v-ets erythroblastosis virus E26 oncogene homolog
V$ETV1.01 Ets variant 1
V$ETV1.02 Ets variant 1
V$ETV3.01 Ets variant 3
V$ETV4.01 Ets variant 4
V$ETV5.01 Ets variant 5
V$ETV6.01 Ets variant 6
V$SPI1.05 SPI-1 proto-oncogene; hematopoietic transcription factor PU.1
V$SPIC.01 Spi-C transcription factor (Spi-1/PU.1 related)
V$GREF Glucocorticoid responsive and related elements V$GRE.03 Glucocorticoid receptor, IR3 sites
V$HEAT Heat shock factors V$HSF1.04 Heat shock factor 1
V$HSF2.03 Heat shock factor 2
V$HOXC HOX - PBX complexes V$HOXC9.02 Member of the vertebrate HOX - cluster of homeobox factors
V$MEIS1.03 Meis homeobox 1
V$LEFF LEF1/TCF V$TCF7L2.02 HMG box transcription factor Tcf7l2 (TCF4)
V$NEUR NeuroD, Beta2, HLH domain V$ATOH1.01 Atonal homolog 1, HATH1, MATH-1
V$NGRE "Negative" glucocoticoid response elements V$IR1_NGRE.01 Repressive binding sites for glucocorticoid receptor (IR1)
V$IR2_NGRE.01 Repressive binding sites for glucocorticoid receptor (IR2)
V$P53F p53 tumor suppressor V$P53.07 Tumor suppressor p53
V$PAX3 PAX-3 binding sites V$PAX3.03 Pax-3 paired domain protein
V$PAX5 PAX-2/5/8 binding sites V$PAX5.04 B-cell-specific activator protein (BSAP)
V$STEM Motif composed of binding sites for pluripotency or stem cell factors V$OSNT.01 Composed binding site for Oct4, Sox2, Nanog, Tcf3 (Tcf7l1) and Sall4b in pluripotent cells
V$ZF09 C2H2 zinc finger transcription factors 9 V$ZNF274.01 Zinc finger protein with KRAB and SCAN domains 19 (ZKSCAN19); zinc finger protein zfp2
V$ZF10 C2H2 zinc finger transcription factors 10 V$PRDM14.01 PR domain zinc finger protein 14


Plants

Family Family Information Matrix Name Matrix Information
P$MIIG MYB IIG-type binding sites P$ACTYP.01 AC-type motifs, MYB46/MYB83-responsive elements
P$NACF Plant specific NAC [NAM (no apical meristem), ATAF172, CUC2 (cup-shaped cotyledons 2)] transcription factors P$ANAC078.01 Transcription factor NAC2
P$PNRE Plant nitrate-responsive cis-elements P$NRE.01 Nitrate-responsive element
P$SBPD SBP-domain proteins P$SPL14.01 Squamosa promoter binding protein-like 14
P$SLIM Sulphur limitation, elements found in genes inducible during sulphur deprivation P$UPE-BOX.01 Binding sites for AtSLIM1 and NtEIL2
P$SWNS Secondary wall NACS P$SNBE.01 Secondary wall NAC binding elements
P$TDTF Transposase-derived transcription factors P$FHY3_FAR1.01 FAR-RED ELONGATED HYPOCOTYLS 3 and FAR-RED IMPAIRED RESPONSE 1
P$TERE Tracheary-element-regulating cis-elements, conferring TE-specific expression P$TERE.01 Tracheary-element-regulating cis-element
P$VRES VIP1 responsive elements P$VIP1.01 VirE2-interacting protein 1



Weight matrices moved to other families


Weight matrices modified

The following weight matrices have been replaced by better matrices:

Matrices renamed

The following matrices have been renamed: