The DOI matches its Crossref record; 19 of the 19 references it cites were found in a registry or an index.
Genome-wide Profiling of 5-Formylcytosine Reveals Its Roles in Epigenetic Priming
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SUMMARY TET proteins oxidize 5-methylcytosine (5mC) to 5-hydroxymethylcytosine (5hmC), 5-formylcytosine (5fC), and 5-carboxylcytosine (5caC). 5fC and 5caC are excised by mammalian DNA glycosylase TDG, implicating 5mC oxidation in DNA demethylation. Here we show that the genomic locations of 5fC can be determined by coupling chemical reduction with biotin tagging. Genome-wide mapping of 5fC in mouse embryonic stem cells (mESCs) reveals that 5fC preferentially occurs at poised enhancers among other gene regulatory elements. Application to Tdg null mESCs further suggests that 5fC production coordinates with p300 in remodeling epigenetic states of enhancers. This process, which is not influenced by 5hmC, appears to be associated with further oxidation of 5hmC and commitment to demethylation through 5fC. Finally, we resolved 5fC at base-resolution by hydroxylamine-based protection from bisulfite-mediated deamination, thereby confirming sites of 5fC accumulation. Our results reveal roles of active 5mC/5hmC oxidation and TDG-mediated demethylation in epigenetic tuning at regulatory elements.
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Cites
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Tet proteins can convert 5-methylcytosine to 5-formylcytosine and 5-carboxylcytosine
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“The association between fhMRs and poised enhancers is further strengthened with those predicted as functionally linked to promoters, approaching that observed for Tet1 (Figure S2E, o/e = 10.95, fhMR:hMR = 2.14) (Shen et al., 2012).”
Influential
Cited by
Function and information content of DNA methylation
Schübeler, D. (2015) · Nature · doi:10.1038/nature14192 · Cited by 2,060
Global epigenomic reconfiguration during mammalian brain development
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Self-citationTET-mediated active DNA demethylation: mechanism, function and beyond
Wu, X., & Zhang, Y. (2017) · Nature Reviews Genetics · doi:10.1038/nrg.2017.33 · Cited by 1,661
TET enzymes, TDG and the dynamics of DNA demethylation
Kohli, R. M., & Zhang, Y. (2013) · Nature · doi:10.1038/nature12750 · Cited by 1,623
Role of TET enzymes in DNA methylation, development, and cancer
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Metadata
- Authors
- Song, C.-X., Szulwach, K. E., Dai, Q., Fu, Y., Mao, S.-Q., Lin, L., Street, C., Li, Y., Poidevin, M., Wu, H., Gao, J., Liu, P., Li, L., Xu, G.-L., Jin, P., & He, C.
- Venue
- Cell
- Publisher
- Elsevier BV
- Published
- 2013-04
- Volume
- 153
- Issue
- 3
- Pages
- 678-691
- ISSN
- 0092-8674 (ISSN-L)
- OpenAlex
- W1984066495
- Cited by
- 550
- References
- 19
- FWCI
- 34.02
- Type
- journal article
- Language
- en
- Open access
- bronze
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- Song, C.-X., Szulwach, K. E., Dai, Q., Fu, Y., Mao, S.-Q., Lin, L., Street, C., Li, Y., Poidevin, M., Wu, H., Gao, J., Liu, P., Li, L., Xu, G.-L., Jin, P., & He, C. (2013). Genome-wide Profiling of 5-Formylcytosine Reveals Its Roles in Epigenetic Priming. Cell. https://doi.org/10.1016/j.cell.2013.04.001
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