Publication for Pax3 and Zic1

Species	Symbol	Function*	Entrez Gene ID*	Other ID	Gene coexpression	CoexViewer
mmu	Pax3	paired box 3	18505			[link]
mmu	Zic1	zinc finger protein of the cerebellum 1	22771

Pubmed ID	Priority	Text
24036067	0.99	Zic1 and Pax3 in the 10T1/2 mesodermal cell model results in the enrichment of these factors at the endogenous Myf5 locus and induction of Myf5 expression.
	0.99	Zic1 also associates with Pax3 on the Myf5 promoter to drive Myf5 expression.
	0.98	Pax3 synergizes with both Gli2 and Zic1 in transactivating the Myf5 epaxial somite (ES) enhancer in concert with the Myf5 promoter.
	0.98	Zic1 and Pax3 in the 10T1/2 mesodermal cell model results in enrichment of these factors at the endogenous Myf5 locus and induction of Myf5 expression.
	0.98	Pax3 strengthens the ability of both Zic1 and Gli2 to transactivate Myf5 in the epaxial somite.
	0.98	Pax3, Zic1 is expressed exclusively in epaxial muscle progenitors within the dermomyotome.
	0.98	Pax3 to synergize with both Zic1 and Gli2, in spite of the fact that these factors can interact in the absence of DNA.
	0.98	Zic1 and Pax3 are still capable of synergizing in the absence of a functional Gli binding site, indicating that Zic1 does not require the Gli motif in the ES enhancer to synergize with Pax3 (Fig. 2D).
	0.98	Zic1DeltaZOC was unable to synergize with Pax3, indicating that in addition to repressing Zic1 activity, the ZOC motif is also required for cooperative interactions with other factors (Fig. 3B).
	0.98	Pax3 was deleted, the remaining protein was incapable of synergizing with Zic1, suggesting that the ability of Pax3 to recruit coactivators is critical for synergy (Fig. 3B).
	0.98	Pax3 and Zic1 are enriched at the ES enhancer during induction of Myf5 transcription
	0.98	Pax3 and Zic1, in which Pax3 binds its recognition motif in the Myf5 promoter via the HD and Zic1 binds GC-rich sequences via its zinc finger domain (Fig. 5A).
	0.98	Pax3 and the ZOC motif of Zic1 (which is normally repressive in the absence of Pax3) prevent Zic1 from recruiting transcriptional co-repressors, while the transactivation domain (TD) of Pax3 serves to recruit transcriptional co-activators for gene expression (Fig. 5A).
	0.98	Pax3 and Zic1 are both expressed in the dorsal neural tube.
	0.98	Pax3 and Zic1 are enriched at the ES enhancer during activation of Myf5 transcription
	0.98	Pax3 and the ZOC domain of Zic1 prevents the latter from recruiting transcriptional co-repressors (CoR).
	0.97	Zic1-Pax3 synergy is completely abrogated in the absence of a functional HD motif (Fig. 2B).
	0.97	Zic1/Gli2 and Pax3 helps to stabilize Pax3 binding to the HD motif in the absence of a paired motif in the Myf5 promoter.
	0.97	Zic1 synergizes with Pax3 by binding to functionally redundant motifs in the Myf5 promoter; however, we cannot rule out that Zic1 acts as a transcriptional cofactor for Pax3.
	0.97	Zic1 and Pax3-HA at the ES enhancer, likely due to enhancer-promoter looping interactions (Fig. 4B).
	0.97	Zic1 and Pax3, through the establishment of interactions that require DNA-binding and likely help to recruit or stabilize coactivator proteins.
	0.97	Pax3 also activates epaxial Myf5 expression directly, by binding a homeodomain motif in the Myf5 promoter and synergizing with both Gli2, bound to the ES enhancer, and Zic1, which recognizes GC-rich motifs in the promoter.
	0.96	Pax3 synergizes with Gli2 and Zic1 in transactivating the Myf5 epaxial somite enhancer
	0.96	Pax3 synergizes with Gli2 and Zic1 in transactivating the Myf5 ES enhancer and promoter
	0.96	Zic1 appears to be a stronger activator of the ES enhancer-promoter construct when the HD motif is mutated, and Pax3 is still able to activate this construct, indicating an indirect effect of Pax3 on the ES enhancer or Myf5 promoter (Fig. 2B).
	0.96	Pax3 HD also resulted in a loss of synergy with Zic1, further confirming that DNA-binding of Pax3 is required for synergy (Fig. 3B).
	0.96	Pax3 synergizes with Gli2 and Zic1 in transactivating the Myf5 ES enhancer and promoter
	0.96	Pax3 binds the homeodomain motif in the Myf5 promoter (TAAT) via its homeodomain (HD), and Zic1 binds GC-rich sequences via its zinc finger domain.
	0.93	Zic factors associate with DNA via their zinc fingers; as expected, when the zinc fingers of Zic1 were removed (Zic1DeltaZF), the protein had little effect on reporter activity and was incapable of synergizing with Pax3 (Fig. 3B).
	0.92	Zic1 binding in gel-shift assays; however, mutation of either sequence had no effect on Zic1-Pax3 synergy (data not shown).
	0.89	Pax3 or Zic factors.
	0.88	Zic1 or Pax3 alone increased activity of the reporter construct, the combination of factors displayed a modest, but statistically significant synergy (Fig. 1A).
	0.88	Pax3, Gli2, and Zic1 are required for synergy
	0.88	Pax3, Gli2, and Zic1 are required for synergy
	0.87	Zic1-Pax3 synergy does not take place on a construct driven by multiple Gli motifs (Fig. 2C), providing further evidence that Zic1 does not synergize with Pax3 via binding to Gli motifs.
	0.81	Zic1 and Pax3 occupy the endogenous Myf5 promoter during activation of Myf5 expression, we performed chromatin immunoprecipitation (ChIP) assays on chromatin from 10T1/2 cells overexpressing FLAG-Zic1 and Pax3-HA.
30169530	0.98	Zic1, Pax3, and Sox10 and loss of H3K27me3 marks in the promoter regions of these genes in the myenteric plexus.
	0.98	Zic1, Pax3, and Sox10.
	0.98	Pax3, Zic1, and Sox10.
	0.98	Zic1 (n = 6, p = 0.003) and Pax3 (n = 6, p = 0.019), were 5 to 30 fold up-regulated in the Ezh2 null embryos compared to their wild-type littermates (Fig 3).
	0.98	Pax3, Zic1 and Sox10 are aberrantly expressed in the isolated Ezh2 null myenteric plexus cells (Fig 4B).
	0.98	Zic1, Pax3 and Sox10, and reduced levels of H3K27me3 modifications in the promoter regions of NCC developmental genes.
	0.98	Pax3, Zic1, and Sox10 during the development of the ENCCs.
	0.98	Pax3 and Zic1 expression compared to its wild-type littermates (Fig 3).
	0.98	Pax3 and Zic1, resulting in competition for transcription factors or changes in chromatin structures of downstream gene enhancers.
	0.98	Pax3 and Zic1, Sox10 was also significantly up-regulated in the myenteric plexus cells.
	0.97	Pax3 and Zic1 specify the neural plate border, and Sox10 sustains NCC multipotency.
	0.97	Pax3 and Zic1 showed the most significantly (p = 0.0011 and p = 0.0035, respectively) reduced levels of H3K27me3 enrichment in the Ezh2 null embryos (n = 6) compared to those from the wild-type littermates (n = 8) (Fig 4C).
	0.96	Pax3 (n = 3, p = 0.0010) and Zic1 (n = 3, p = 0.0071) was consistently derepressed in the myenteric plexus of the Ezh2 null mice, while no expression was observed in the wild-type littermate control.
	0.96	Pax3 and Zic1.
	0.96	Pax3 and Zic1 expression may have never been shut down due to the loss of H3K27me3 repression signals in the Ezh2 mutants.
	0.95	Zic1 (n = 6, p = 0.003) and Pax3 (n = 6, p = 0.0019) were up-regulated in the Ezh2 null mice.
	0.95	Pax3 and Zic1 in the Ezh2 null mice may be limited to the ENCCs, since significant upregulation of these genes were not detected in the BA1 cells of Ezh2 null mice in previous studies.
	0.93	Pax3 (226 bp) and Zic1 (235 bp) expression in Ezh2 null mutants and absence of expression in its wild-type littermates (S10 Fig).
	0.92	Pax3 was confirmed through whole mount in situ hybridization of E14.5 gut (S10 Fig) and the expression of the aberrant transcripts of Pax3, Zic1 and Sox10 were further confirmed in the isolated myenteric plexus cells (Fig 4).
	0.91	Pax3 was upregulated 20-40 fold (n = 3, p = 0.0010), Sox10 was upregulated 5-30 fold (n = 3, p = 0.0263), and Zic1 was upregulated 40-100 fold (n = 3, p = 0.0071) compared to its wild type littermates.
	0.70	Pax3 or Zic1 (S5 Fig).
21143873	0.98	Zic1 transcripts in somites of Pax3GFP/GFP embryos in the epaxial/central domain, which is less affected by cell death, is consistent with negative regulation by Pax3 (Additional file 2 Table S2B).
	0.98	PAX3-FKHR suggesting that Pax3 fine-tunes Wnt and Shh signalling, probably also limiting the spatial extent of their action in the somite (see Additional file 1 Figure S1 for Zic1).
	0.97	Zic1 transcripts are enriched in the whole somite, consistent with an expression mainly in the epaxial domain, as seen by immunofluorescence on sections (Additional file 1 Figure S1C), where Zic1 protein is co-expressed with Pax3 in the epaxial dermomyotome as well as in the dorsal neural tube and in Pax3 negative mesenchyme.
26873953	0.98	Pax3/7, Zic1, Dlx3/5, Tfap2a) in the edge of the neural plate lead to the formation of the NBP.
	0.97	Pax3 and Zic1 cooperate as NBP specifiers and directly activate NC specifiers during NC development.
	0.86	Pax3 and Zic1 in our analysis possibly suggested that the isolated SOX10+ cell population contained NC cells at the late stage of migration.
23284303	0.98	Pax3/7 and Zic1, termed neural plate border genes.
	0.98	Pax3/7 and Zic1.
24014420	0.98	Pax3, and Zic1) that, along with signaling molecules, are thought to direct the expression of NCC transcriptional specifiers (including Tfap2a, Foxd3, Crabp1, Snai2, and Sox10).
25904863	0.98	Zic1 and Pax3, activates Myf5 epaxial enhancer during somitogenesis (Himeda et al.,).
28441415	0.98	Pax3, which most closely resembles Pax7, was reported to interact with Zic1, suggesting possible interplay between Pax family members and zinc-finger proteins at these sites in satellite cells.
29722151	0.98	PAX3 and ZIC1 activate the expression of Gbx2 (Figure 6).
29784997	0.98	PAX3, ZIC1 and MSX1 and NC marker SOX10 in micropatterned hES cell colonies is consistent with mouse embryo development in vivo.
30241514	0.98	ZIC1 protein has also been shown to act as a protein transcription factor upstream Pax3 in the induction of embryonic neural crest.
30786278	0.98	Pax3, Pax7, Zic1, Zic2, Sox9, and Sox10, are enriched in the pNC.
31297611	0.98	paired box 3 (Pax3) and zinc finger protein of the cerebellum 1 (Zic1), both of which are regulated by Ap2, were the most highly expressed genes in d7 cells (Fig. 3a).
22848431	0.97	Pax3, Pax7, Zic1, Msx1 and Msx2, specify the neural plate border.
23288605	0.97	Pax3, Pax6, Reln, Zic1, were induced, while the negative regulator of neurogenesis Rest (RE1-silencing factor), was down-regulated.
24509233	0.97	Pax3/7, Zic1, Dlx3/5, Hairly2, Id3, and Ap2.
25670789	0.97	ZIC1 and PAX3, but is later maintained by SNAIL2 and SOX9.
30012125	0.97	Pax3, Zic1) in mouse and/or zebrafish are perturbed, like morphants, in NPB-derived tissues (Additional file 1: Table S1).
30551562	0.97	Pax3/Zic1 or Snai2/Wnt8 made gastrula explants competent to produce myogenic differentiation 1 (MyoD) and Endodermin.
23024056	0.96	Zic family genes occurs in parallel and may partially explain the production of NTDs in homozygous mutant CXL-Splotch and Fkbp8-/- mice.
	0.94	Zic1, which showed decreased expression in both CXL-Splotch and Fkbp8Gt(neo) microarrays (Table 2 and Figure 4).
22547091	0.95	Pax3/7, Msx1/2, and Zic genes becoming detectable by E7.5, about the time the neural folds form and slightly before the expression of NC specifiers and the appearance of migratory NCCs ( and our unpublished observations).
27462403	0.91	PAX3 RETN, and SERPINF1 (p < 0.05 to 0.001), while neither nuclear population was enriched for other transcripts that might be considered adipocyte-enriched (e.g., PRDM16, PPARg2, FABP4, ZIC1).
17352807	0.77	Pax3, Dlx5, Zic, and Msx1/2) and 'neural crest specifiers' (such as FoxD, Snail/Slug, Sox9/10, Twist, and AP-2) can be traced back to our category 'metazoans' or 'eukaryotes'.
26545946	0.60	Pax3/7 or Zic1 in the neural plate border.