About Enhancer
| Enhancer ID: | E_02_0870 |
| Species: | mouse |
| Position : | chr17:35499359-35507923   |
| Biosample name: | |
| Experiment class : | Low throughput |
| Enhancer type: | Enhancer |
| Disease: | -- |
| Pubmed ID: | 25775043 |
| Enhancer experiment: | CRISPR/Cas9,3C,Luciferase Reporter Assay,ATAC-seq |
| Enhancer experiment description: | We generated mouse embryonic stem cells (mESCs) expressing versions of Neisseria meningitidis (Nm) dCas9 fused with LSD1, a non-effector BirA affinity tag (BAT), or a KRAB repressor and used a viral delivery system for sgRNAs. We first targeted the well-characterized cis-regulatory region of Oct417, a factor critical for the ESC state. Oct4 expression is regulated by a proximal enhancer (OPE) active in epiblast cells, and a distal enhancer (ODE) active in mESCs and cells of the inner cell mass. Targeting of LSD1 to the ODE resulted in loss of Oct4 expression and appearance of OCT4-negative colonies accompanied by phenotypic changes compared to control dCas9-BAT cells targeted to the same enhancer. |
About Target gene
| Target gene : | Oct-4,Oct-4,Oct-4,Oct-4,Oct-4,Oct-4,Oct-4 |
| Strong evidence: | 3C,CRISPR/Cas9 |
| Less strong evidence: | PCR,ChIP |
| Target gene experiment description: | For follow-up, we focused on the putative Enhancer with the highest differential score,Enh1.Test of Enh1 in a reporter assay confirmed its ability to enhance expression at comparable levels to an Oct4 DE sequence..;For follow-up, we focused on the putative Enhancer with the highest differential score,Enh1.Test of Enh1 in a reporter assay confirmed its ability to enhance expression at comparable levels to an Oct4 DE sequence..;For follow-up, we focused on the putative Enhancer with the highest differential score,Enh1.Test of Enh1 in a reporter assay confirmed its ability to enhance expression at comparable levels to an Oct4 DE sequence..;For follow-up, we focused on the putative Enhancer with the highest differential score,Enh1.Test of Enh1 in a reporter assay confirmed its ability to enhance expression at comparable levels to an Oct4 DE sequence..;For follow-up, we focused on the putative Enhancer with the highest differential score,Enh1.Test of Enh1 in a reporter assay confirmed its ability to enhance expression at comparable levels to an Oct4 DE sequence..;For follow-up, we focused on the putative Enhancer with the highest differential score,Enh1.Test of Enh1 in a reporter assay confirmed its ability to enhance expression at comparable levels to an Oct4 DE sequence..;For follow-up, we focused on the putative Enhancer with the highest differential score,Enh1.Test of Enh1 in a reporter assay confirmed its ability to enhance expression at comparable levels to an Oct4 DE sequence.. |
About TF
| TF name : | Tbx3(D5Ertd189e)Tbx3(D5Ertd189e)Tbx3(D5Ertd189e)Tbx3(D5Ertd189e)Tbx3(D5Ertd189e)Tbx3(D5Ertd189e)Tbx3(D5Ertd189e) |
| TF experiment: | PCR,Luciferase Reporter Assay,ChIP,3C |
| TF experiment description: | This previously unannotated ESC_x0002_specific Enhancer is positioned ~10kb upstream of the transcription factor Tbx3, a gene previously implicated in the maintenance of pluripotency20. We therefore hypothesized that Enh1 may function in the ESC network by regulating Tbx3 expression.;This previously unannotated ESC_x0002_specific Enhancer is positioned ~10kb upstream of the transcription factor Tbx3, a gene previously implicated in the maintenance of pluripotency20. We therefore hypothesized that Enh1 may function in the ESC network by regulating Tbx3 expression.;This previously unannotated ESC_x0002_specific Enhancer is positioned ~10kb upstream of the transcription factor Tbx3, a gene previously implicated in the maintenance of pluripotency20. We therefore hypothesized that Enh1 may function in the ESC network by regulating Tbx3 expression.;This previously unannotated ESC_x0002_specific Enhancer is positioned ~10kb upstream of the transcription factor Tbx3, a gene previously implicated in the maintenance of pluripotency20. We therefore hypothesized that Enh1 may function in the ESC network by regulating Tbx3 expression.;This previously unannotated ESC_x0002_specific Enhancer is positioned ~10kb upstream of the transcription factor Tbx3, a gene previously implicated in the maintenance of pluripotency20. We therefore hypothesized that Enh1 may function in the ESC network by regulating Tbx3 expression.;This previously unannotated ESC_x0002_specific Enhancer is positioned ~10kb upstream of the transcription factor Tbx3, a gene previously implicated in the maintenance of pluripotency20. We therefore hypothesized that Enh1 may function in the ESC network by regulating Tbx3 expression.;This previously unannotated ESC_x0002_specific Enhancer is positioned ~10kb upstream of the transcription factor Tbx3, a gene previously implicated in the maintenance of pluripotency20. We therefore hypothesized that Enh1 may function in the ESC network by regulating Tbx3 expression. |
About Function
| Enhancer function : | We conclude that the dCas9-LSD1 fusion protein allows for an effector dependent definition of functional, native enhancer elements that help to maintain a given cellular state. |
| Enhancer function experiment: | 3C |
| Enhancer function experiment description: |
We conclude that the dCas9-LSD1 fusion protein allows for an effector dependent definition of functional,native Enhancer elements that help to maintain a given cellular state.Accordingly,dCas9-LSD1 provides a rapid and powerful approach to understanding distal cis-regulatory regions such as Enhancers without major disruption of the local genomic architecture. |
About SNP
| SNP ID: | -- |
Upstream Pathway Annotation of TF
| GeneName | Pathway Name | Source | Gene Number |
|---|---|---|---|
| Tbx3 | Hs_Mesodermal_Commitment_Pathway_WP2857_87780 | wikipathways | 47 |
| Tbx3 | Hs_Mesodermal_Commitment_Pathway_WP2857_87780 | wikipathways | 47 |
| Tbx3 | Hs_Mesodermal_Commitment_Pathway_WP2857_87780 | wikipathways | 47 |
| Tbx3 | Hs_Mesodermal_Commitment_Pathway_WP2857_87780 | wikipathways | 47 |
| Tbx3 | Hs_Mesodermal_Commitment_Pathway_WP2857_87780 | wikipathways | 47 |
| Tbx3 | Hs_Mesodermal_Commitment_Pathway_WP2857_87780 | wikipathways | 47 |
| Tbx3 | Hs_Mesodermal_Commitment_Pathway_WP2857_87780 | wikipathways | 47 |
Enhancer associated network
The number on yellow line represents the distance between enhancer and
target gene