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Epigenetics

New England Biolabs has called upon its 40 years of expertise in enzymology to develop several solutions for epigenetics research, including NEBNext® Enzymatic Methyl-seq (EM-seq™) and the EpiMark® suite of products. 

A new method for DNA methylation analysis at the single base level, NEBNext Enzymatic Methyl-seq (NEB #E7120), is now available. This enzyme-based technology minimizes damage to DNA and produces high quality libraries that enable superior detection of 5mC and 5hmC from fewer sequencing reads.

Easy-to-use EpiMark kits simplify DNA methylation (5mC) and hydroxymethylation (5hmC) detection and analysis, as well as ChIP, histone and nucleosome analysis. Independently applicable, individual epigenetics reagents also complement the EpiMark® kits. NEB's methylation- and hydroxymethylation- sensitive or dependent enzymes, DNA methyltransferases and DNA controls are all useful for mapping DNA modifications and methylating DNA at specific sites for gene expression studies. Our protein methyltransferases and recombinant histones perform efficiently in protein modification and characterization studies. Our range of modified and unmodified genomic DNAs can be used as controls for detection of DNA methylation. Our series of human DNA (cytosine-5) methyltransferase (DNMT) antibodies are ideally suited for Western blots and immunoprecipitation.

Our complete Epigenetics suite is expertly designed for optimized research and discovery.

EpiMark® is a registered trademark of New England Biolabs, Inc.
EM-seq™ is a trademark of New England Biolabs, Inc.

Choose Type:

Epigenetics includes these subcategories:

Antibodies

Epigenetic Analysis
Histones
Methylation Dependent Restriction Enzymes for Epigenetics
Methylation Sensitive Restriction Enzymes for Epigenetics
Methyltransferases for Epigenetics
FAQs for Epigenetics
Protocols for Epigenetics
    Publications related to Epigenetics
    • Foraker, A.B., et al. (2012) Clathrin promotes centrosome integrity in early mitosis through stabilization of centrosomal ch-TOG J Cell Biol; 198, 591-605.
    • Gu, L.Q., et al. (2012) Detection of miRNAs with a nanopore single-molecule counter Expert Rev Mol Diagn; 12, 573-584. PubMedID: 22845478
    • Gong, H. wt al. (2012) Near-infrared fluorescence imaging of mammalian cells and xenograft tumors with SNAP-tag PLoS One; 7, PubMedID: 22479502
    • Diep, D. and Zhang, K. (2011) Genome-wide mapping of the sixth base Genome Biol; 12, 116. PubMedID: 21682934, DOI: 10.1186/gb-2010-12-6-116
    • Nelson, F.K, Snyder, M., Gardner, A.F., Hendrickson, C.L., Shendure, J.A., Porreca, G.J., Church, G.M., Ausubel, F.M., Ju, J., Kieleczawa, J. and Slatko, B.E (2011) Introduction and historical overview of DNA sequencing Curr Protoc Mol Biol; Unit 7.0.1-7.0.18.,
    • Wolff, E.M. et al. (2011) Hypomethylation of a LINE-1 Promoter Activates an Alternate Transcript of the MET Oncogene in Bladders with Cancer PLoS Genet; 6, 4:e1000917 . PubMedID: 20421991
    • Kinney, S.M. et al. (2011) Tissue specific distribution and dynamic changes of 5-hydroxymethylcytosine in mammalian genome J Biol Chem; PubMedID: 21610077
    • Cohen-Karni, D, et al. (2011) The MspJI family of modification-dependent restriction endonucleases for epigenetic studies Proc Natl Acad Sci U S A; PubMedID: 21690366, DOI: 10.1073/pnas.1018448108
    • Stroud, H., et al. (2011) 5-Hydroxymethylcytosine is associated with enhancers and gene bodies in human embryonic stem cells Genome Biol; PubMedID: 21689397
    • Canc. Res. (2011) 6-Thioguanine reactivates epigenetically silenced genes in acute lymphoblastic leukemia cells by facilitating proteasome-mediated degradation of DNMT1 Cancer Res; 71, 1904-1911. PubMedID: 21239472
    • Ficz, G., et al. (2011) Dynamic regulation of 5-hydroxymethylcytosine in mouse ES cells and during differentiation Nature; PubMedID: 21460836, DOI: 10.1038/nature10008
    • Zhang, J. et al. (2011) Cyclophosphamide perturbs cytosine methylation in jurkat-T Cells through LSD1-mediated stabilization of DNMT1 Protein Chem Res Toxicol; 24(11), PubMedID: 22007908
    • (2011) Comparitive characterization of the PvuRts11 family and application in mapping genomic 5-hydroxymethylcytosine Nucleic Acids Res; 39, 9294-9305. PubMedID: 21813453, DOI: 10.1093/nar/gkr607
    • Mooijman D, Dey S S, Boisset JC, Crosetto N, van Oudenaarden A (2016) Single-cell 5hmC sequencing reveals chromosome-wide cell-to-cell variability and enables lineage reconstruction Nat Biotechnol; 34, 852-857. PubMedID: 27347753, DOI: 10.1038/nbt.3598
    • Marx V. (2016) Genetics: profiling DNA methylation and beyond Nat Methods; 13, 119-122. DOI: 10.1038/nmeth.3736
    • Wanunu, M. et al. (2010) Discrimination of methylcytosine from hydroxymethylcytosine in DNA molecular J Am Chem Soc; 133(3), PubMedID: 21155562
    • Laget, S., et al. (2010) The human proteins MBD5 and MBD6 associate with heterochromatin but they do not bind methylated DNA PLoS One; 5, PubMedID: 20700456
    • Wanunu, M., et al. (2010) Rapid electronic detection of probe-specific microRNAs using thin nanopore sensors Nat Nanotechnol; 5, 807-814. PubMedID: 20972437
    • Zheng, Y. et al. (2010) A unique family of Mrr-like modification-dependent restriction endonucleases Nucleic Acids Res; 38(16), 5527-5534. PubMedID: 20444879
    • Chernov AV., Reyes L., Peterson S., Strongin AY. (2015) Depletion of CG-Specific Methylation in Mycoplasma hyorhinis Genomic DNA after Host Cell Invasion PLoS One; 10, e0142529. PubMedID: 26544880, DOI: 10.1371/journal.pone.0142529
    • Kienhöfer S., Musheev M., Stapf U., Helm M., Schomacher L., Niehrs C., Schäfer A. (2015) GADD45a physically and functionally interacts with TET1Publication Differentiation; PubMedID: 26546041, DOI: 10.1016/j.diff.2015.10.003
    • Page A., Paoli P., Salvador E., White S., French J., Mann J. (2015) Hepatic Stellate Cell Transdifferentiation Involves Genome-Wide Remodeling of the DNA Methylation Landscape J Hepatol; PubMedID: 26632634, DOI: 10.1016/j.jhep.2015.11.024
    • Wee E., Ngo T., Trau M. (2015) A simple bridging flocculation assay for rapid, sensitive and stringent detection of gene specific DNA methylation Sci Rep; 5, 15028. PubMedID: 26458746, DOI: 10.1038/srep15028
    • Jensen, H.M., et al. (2010) Engineering of a synthetic electron conduit in living cells Proc Natl Acad Sci U S A; 107, 19213-19218. PubMedID: 20956333
    • Sexton T, Kurukuti S, Mitchell JA, Umlauf D, Nagano T, Fraser P (2012) Sensitive detection of chromatin coassociations using enhanced chromosome conformation capture on chip Nat Protoc; 7(7), 1335-50. PubMedID: 22722369, DOI: 10.1038/nprot.2012.071
    • Ho, J.J., et al. (2012) Functional importance of Dicer protein in the adaptive cellular response to hypoxia J Biol Chem; 17, 29003-20. PubMedID: 22745131, DOI: 10.174/jbcM112.373365
    • Grant, T.J., et al. (2012) Antiproliferative small-molecule inhibitors of transcription factor LSF reveal oncogene addiction to LSF in hepatocellular carcinoma Proc Natl Acad Sci U S A; 109, 4503-4508. PubMedID: 22396589
Types of Histone Modifications
Amino Acid Modification
Lysine Methylation, Acetylation,
Ubiquitination, Sumoylation,
ADP-Ribosylation
Arginine Methylation
Serine Phosphorylation
Threonine Phosphorylation
Types of DNA Modifications

References

  1. Kim, J.K., Samaranayake, M. and Pradhan S. (2009) Cell. Mol. Life Sci. 66, 596-612. PMID: 18985277
  2. Vanyushin, B.F. (2006) Curr. Top. Microbiol. Immunol. 301, 67-122. PMID: 16570846
  3. Mosher, R.A., Melnyk, C.W. (2010) Trends Plant Sci. 15, 204-210. PMID: 20129810
  4. Lyko, F., Beisel, C., Marhold, J., Paro, R. (2006) Curr. Top. Microbiol. Immunol. 310, 23-44. PMID: 16909905
  5. Selker, E.U., Freitag, M., Kothe, G.O., et al. (2002) Proc. Natl. Acad. Sci. U S A. 99, Suppl 4, 16485-16490. PMID: 12189210
  6. Kriaucionis, S. and Heintz, N. (2009) Science 324, 929-930. PMID: 19372393
  7. Tahiliani, M., Koh, K. P., Shen, Y., et al. (2009) Science 324, 930-935. PMID: 19372391
  8. Ehrlich, M., Wilson, G.G., Kuo, K.C., And Gehrke, C.W. (1987) J. Bacteriol. 169, 939-943. PMID: 3029036
  9. Svadbina, I.V., Zelinskaya, N.V., Kovalevskaya, N.P., Zheleznaya, L.A. and Matvienko, N.I. (2004) Biochem. (Moscow) 69, 299-305. PMID: 15061697
  10. Ratel, D., Ravanat, J-L., Berger, F. and Wion D. (2006) Bioessays 28, 309-315. PMID: 16479578
  11. Marinus, M.G. and Casadesus, J. (2009) FEMS Microbiol. Rev. 33, 488-503. PMID: 19175412
ChIP-Seq Library Construction Workflow
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Products and content are covered by one or more patents, trademarks and/or copyrights owned or controlled by New England Biolabs, Inc (NEB). The use of trademark symbols does not necessarily indicate that the name is trademarked in the country where it is being read; it indicates where the content was originally developed. The use of this product may require the buyer to obtain additional third-party intellectual property rights for certain applications. For more information, please email [email protected].

This product is intended for research purposes only. This product is not intended to be used for therapeutic or diagnostic purposes in humans or animals.


Videos

  • What is Epigenetics?

    What Is Epigenetics?

    If all cells are created from the same genetic material, why are there so many different cell types? Listen to Sriharsa Pradhan, Senior Scientist, RNA Biology at NEB, as he describes how DNA is methylated and how this affects the path of reading the DNA code the same way an obstruction would derail a train off its tracks.

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