About Enhancer
| Enhancer ID: | E_02_0837 |
| Species: | mouse |
| Position : | chr2:172513228-172520500   |
| Biosample name: | |
| Experiment class : | Low+High throughput |
| Enhancer type: | Enhancer |
| Disease: | -- |
| Pubmed ID: | 26748758 |
| Enhancer experiment: | ChIP-seq,RT-qPCR |
| Enhancer experiment description: | To test if Foxd3 was indeed able to silence na?ve pluripotency enhancers, we evaluated the impact of Foxd3 overexpression on some of these regulatory elements. tetOn Foxd3 mESC were treated with Dox and the levels of various histone modifications (i.e. H3K27ac, H3K27me2, H3K4me1, H3K4me2) at selected enhancers were evaluated by ChIP-qPCR. Compared to control cells, tetOn Foxd3 cells displayed lower levels of H3K27ac and H3K4me2 (active enhancers) , increased H3K27me2 (inactive enhancers) and minor changes in H3K4me1 levels (active and inactive enhancers)at most of the analysed na?ve enhancers (Figure 4B-C, Figure S5A-B). |
About Target gene
| Target gene : | Tfap2C(AA409384,AP2gamma,Ap-2.2,Stra2,Tcfap2c),Tfap2C(AA409384,AP2gamma,Ap-2.2,Stra2,Tcfap2c) |
| Strong evidence: | -- |
| Less strong evidence: | ChIP-seq,RT-qPCR |
| Target gene experiment description: | ChIP-Seq profiles generated in Foxd3-FH mES cells with anti-HA and anti-Flag antibodies around a representative locus (i.e.,Tfap2c).;ChIP-Seq profiles generated in Foxd3-FH mES cells with anti-HA and anti-Flag antibodies around a representative locus (i.e.,Tfap2c). |
About TF
| TF name : | Foxd3(AIS1,Genesis,HFH2,VAMAS2)Foxd3(AIS1,Genesis,HFH2,VAMAS2) |
| TF experiment: | ChIP-qPCR |
| TF experiment description: | To test if Foxd3 was indeed able to silence naive pluripotency enhancers, we evaluated the impact of Foxd3 overexpression on some of these regulatory elements. tetOn Foxd3 mESCs were treated with Dox, and the levels of various histone modifications (i.e., H3K27ac, H3K27me2, H3K4me1, and H3K4me2) at selected enhancers were evaluated by ChIP-qPCR. Compared to control cells, tetOn Foxd3 cells displayed lower levels of H3K27ac and H3K4me2 (active enhancers) , increased H3K27me2 (inactive enhancers) and minor changes in H3K4me1 levels (active and inactive enhancers)at most of the analysed na?ve enhancers (Figure 4B-C, Figure S5A-B).Using RT-qPCR, we found that Foxd3 overexpression significantly reduced eRNA levels at most of the analysed enhancers (Figure S5C). The role of Foxd3 was similarly evaluated using Foxd3?/? mESC, which displayed increased levels of H3K27ac and H3K4me2 (Figure 4D-E) and minor changes in H3K27me2 (Figure S5D) at most of the analysed enhancers.;To test if Foxd3 was indeed able to silence naive pluripotency enhancers, we evaluated the impact of Foxd3 overexpression on some of these regulatory elements. tetOn Foxd3 mESCs were treated with Dox, and the levels of various histone modifications (i.e., H3K27ac, H3K27me2, H3K4me1, and H3K4me2) at selected enhancers were evaluated by ChIP-qPCR. Compared to control cells, tetOn Foxd3 cells displayed lower levels of H3K27ac and H3K4me2 (active enhancers) , increased H3K27me2 (inactive enhancers) and minor changes in H3K4me1 levels (active and inactive enhancers)at most of the analysed na?ve enhancers (Figure 4B-C, Figure S5A-B).Using RT-qPCR, we found that Foxd3 overexpression significantly reduced eRNA levels at most of the analysed enhancers (Figure S5C). The role of Foxd3 was similarly evaluated using Foxd3?/? mESC, which displayed increased levels of H3K27ac and H3K4me2 (Figure 4D-E) and minor changes in H3K27me2 (Figure S5D) at most of the analysed enhancers. |
About Function
| Enhancer function : | -- |
| Enhancer function experiment: | -- |
| Enhancer function experiment description: |
-- |
About SNP
| SNP ID: | -- |
Upstream Pathway Annotation of TF
| GeneName | Pathway Name | Source | Gene Number |
|---|---|---|---|
| Foxd3 | POU5F1 (OCT4), SOX2, NANOG activate genes related to proliferation | reactome | 13 |
| Foxd3 | Hs_Neural_Crest_Differentiation_WP2064_79263 | wikipathways | 40 |
| Foxd3 | POU5F1 (OCT4), SOX2, NANOG activate genes related to proliferation | reactome | 13 |
| Foxd3 | Hs_Neural_Crest_Differentiation_WP2064_79263 | wikipathways | 40 |
Enhancer associated network
The number on yellow line represents the distance between enhancer and
target gene