Epigenetics
Epigenetics is the study of heritable changes in gene expression not encoded in DNA. Changes in epigenetic states play vital roles in development and disease. Efficient approaches to decode the epigenome and epitranscriptome drive fundamental knowledge, diagnostics, and therapeutics. NEB has applied its expertise in enzymology to offer innovative approaches for epigenetic analyses that address challenges with conventional methods.
Tools for epigenetics discovery and development
Our epigenetics solutions simplify analyses of DNA methylation, hydroxymethylation, the epitranscriptome, chromatin accessibility, and chromatin interactions. Enzymatic methyl conversion enables superior mapping of DNA methylation or hydroxymethylation at single nucleotide resolution. NEBNext® library preparation workflows, and DNA polymerases optimized for GC-rich sequences, streamline next generation sequencing methylome analysis. EpiMark® enrichment kits efficiently profile genomes for relative abundance of methylated DNA or RNA. Liquid chromatography mass spectrometry analysis of nucleotide modifications is streamlined using our ribonucleases (RNases) and Nucleoside Digestion Mix. Sequence-specific digests with isoschizomer pairs offer simplified detection of DNA methylation at specific loci. Methylated DNA controls at specific sites can be generated with DNA methyltransferases. Chromatin interactions and accessibility can be explored in novel ways with next generation sequencing methods.
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Chromatin Analysis
Epitranscriptome Analysis
DNA Methylation Analysis
Methyltransferases for Epigenetics
Hydroxymethylation Detection and Analysis
Analysis of DNA Methylation by Bisulfite Conversion
Enrichment
Enzymatic Conversion for DNA Methylation Analysis
Methylation Sensitive and Methylation Dependent Restriction Enzymes for Epigenetics
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Enzymatic Methyl-seq: The Next Generation of Methylome Analysis
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Epigenetics - Expanding on Genomic Foundations
- Epigenetics Brochure
- Restriction Enzymes for Epigenetics Selection Chart
- EpiMark® Methylated DNA Enrichment Kit Troubleshooting Guide
Feature Articles
Brochures
Selection Tools
Troubleshooting Guides
- 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
- 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
- Wanunu, M. et al. (2010) Discrimination of methylcytosine from hydroxymethylcytosine in DNA molecular J Am Chem Soc; 133(3), PubMedID: 21155562
- Zheng, Y. et al. (2010) A unique family of Mrr-like modification-dependent restriction endonucleases Nucleic Acids Res; 38(16), 5527-5534. PubMedID: 20444879
- 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
- Kinney, S. M., Chin, H. G., Vaisvila, R., Bitinaite, J., Zheng, Y., Estève, P. O., Feng, S., Stroud, H., Jacobsen, S. E., Pradhan, S. (2011) Tissue specific distribution and dynamic changes of 5-hydroxymethylcytosine in mammalian genome J Biol Chem; 286:28, 24685–2469. 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; PubMedID: 22007908
- Wang, H., Guan, S., Quimby, A., Cohen-Karni, D., Pradhan, S., Wilson, G., Roberts, R. J., Zhu, Z., Zheng, Y. (2011) Comparative characterization of the PvuRts1I family of restriction enzymes and their application in mapping genomic 5-hydroxymethylcytosine Nucleic Acids Research; 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
- 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., PubMedID: 21987056
- 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
- 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
- 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
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