The DOI matches its Crossref record; 15 of the 15 references it cites were found in a registry or an index.
Base-Resolution Analysis of 5-Hydroxymethylcytosine in the Mammalian Genome
Open accessAbstract
SUMMARY The study of 5-hydroxylmethylcytosines (5hmC) has been hampered by the lack of a method to map it at single-base resolution on a genome-wide scale. Affinity purification-based methods cannot precisely locate 5hmC nor accurately determine its relative abundance at each modified site. We here present a genome-wide approach, Tet-assisted Bisulfite Sequencing (TAB-Seq), for mapping 5hmC at base resolution and quantifying the relative abundance of 5hmC as well as 5mC when combined with traditional bisulfite sequencing. Application of this method to embryonic stem cells not only confirms widespread distribution of 5hmC in the mammalian genome, but also reveals sequence bias and strand asymmetry at 5hmC sites. We observe high levels of 5hmC and reciprocally low levels of 5mC near but not on transcription factor binding sites. Additionally, the relative abundance of 5hmC varies significantly among distinct functional sequence elements, suggesting different mechanisms for 5hmC deposition and maintenance.
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The Sequence Alignment/Map format and SAMtools
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The Human Genome Browser at UCSC
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Jaenisch, R., & Bird, A. (2003) · Nature Genetics · doi:10.1038/ng1089 · Cited by 6,325
Human DNA methylomes at base resolution show widespread epigenomic differences
Lister, R., Pelizzola, M., Dowen, R. H., Hawkins, R. D., Hon, G., Tonti-Filippini, J., Nery, J. R., Lee, L., Ye, Z., Ngo, Q.-M., et al. (2009) · Nature · doi:10.1038/nature08514 · Cited by 4,673
Self-citationEvolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes
Siepel, A., Bejerano, G., Pedersen, J. S., Hinrichs, A. S., Hou, M., Rosenbloom, K., Clawson, H., Spieth, J., Hillier, L. W., Richards, S., et al. (2005) · Genome Research · doi:10.1101/gr.3715005 · Cited by 3,971
Tet proteins can convert 5-methylcytosine to 5-formylcytosine and 5-carboxylcytosine
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Self-citationThe Nuclear DNA Base 5-Hydroxymethylcytosine Is Present in Purkinje Neurons and the Brain
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DNA-binding factors shape the mouse methylome at distal regulatory regions
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Cited by
Master Transcription Factors and Mediator Establish Super-Enhancers at Key Cell Identity Genes
Whyte, W. A., Orlando, D. A., Hnisz, D., Abraham, B. J., Lin, C. Y., Kagey, M. H., Rahl, P. B., Lee, T. I., & Young, R. A. (2013) · Cell · doi:10.1016/j.cell.2013.03.035 · Cited by 4,143
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
Lister, R., Mukamel, E. A., Nery, J. R., Urich, M., Puddifoot, C. A., Johnson, N. D., Lucero, J., Huang, Y., Dwork, A. J., Schultz, M. D., et al. (2013) · Science · doi:10.1126/science.1237905 · Cited by 1,830
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
Modification of Enhancer Chromatin: What, How, and Why?
Calo, E., & Wysocka, J. (2013) · Molecular Cell · doi:10.1016/j.molcel.2013.01.038 · Cited by 1,457
Metadata
- Authors
- Yu, M., Hon, G. C., Szulwach, K. E., Song, C.-X., Zhang, L., Kim, A., Li, X., Dai, Q., Shen, Y., Park, B., Min, J.-H., Jin, P., Ren, B., & He, C.
- Venue
- Cell
- Publisher
- Elsevier BV
- Published
- 2012-06
- Volume
- 149
- Issue
- 6
- Pages
- 1368-1380
- ISSN
- 0092-8674 (ISSN-L)
- OpenAlex
- W2043472013
- Cited by
- 1,036
- References
- 15
- FWCI
- 43.91
- Type
- journal article
- Language
- en
- Open access
- bronze
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- Yu, M., Hon, G. C., Szulwach, K. E., Song, C.-X., Zhang, L., Kim, A., Li, X., Dai, Q., Shen, Y., Park, B., Min, J.-H., Jin, P., Ren, B., & He, C. (2012). Base-Resolution Analysis of 5-Hydroxymethylcytosine in the Mammalian Genome. Cell. https://doi.org/10.1016/j.cell.2012.04.027
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