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Detect epigenetics without compromising discovery

Epigenetic modifications play an important role in the biology of eukaryotes. A prime example is the impact of DNA methylation on gene expression, imprinting, and X chromosome inactivation. Additionally, the deregulation of epigenetic machinery has been implicated in Mendelian disease, human cancer, and drug resistance1,2. While the most commonly used methods for determining CpG methylation rely on targeted approaches, these methods are restricted by indirect detection and the limitations of many sequencing technologies.

Discover more with SMRT epigenetics

By pairing high throughput with long reads, the PacBio Systems offer scalable solutions for assessing CpG methylation in eukaryotic genomes. When using Single Molecule, Real-Time (SMRT) Sequencing, genome-wide regional methylation information is generated with no additional sample preparation. For targeted applications, SMRT bisulfite sequencing marries bisulfite samples with highly multiplexed, quantitative long-read sequencing, accurately measuring CpG methylation across ~1.5 kb regions.

Spotlight_Applications_Epigenetics_Eukaryoticsspotlight-human-icon

Workflow: from DNA to epigenetic information

  • SMRT Sequencing with PacBio Systems
    • Take advantage of the Sequel System to reduce project costs and generate 7X more reads compared with the PacBio RS II
    • Achieve ~10 kb average read lengths, with some reads as long as 60 kb Average read lengths 10–15 kb

Featured research: whole genome sequencing and epigenome characterization of cancer cells

Epigenetics.Spotlight

PacBio sequencing was used to characterize the cancer genomes of both drug-sensitive and drug-resistant PC-9 cells. Large-scale changes in the methylation status were observed, allowing researchers to explore the function of methylation on drug sensitivity3.

Explore this research further.

To learn more about how you can use SMRT Sequencing for eukaryotic epigenetics, contact us.

 

References

  1. Fahrner, J.A. and Bjornson, H.T. (2014) Mendelian disorders of the epigenetic machinery: tipping the balance of chromatin states. Annual Reviews Genomics and Human Genetics. 15, 269-293.
  2. Baylin, S.B. and Herman J.G. (2000) DNA hypermethylation in tumorigenesis: epigenetics joins genetics. Trends in Genetics. 16(4),168–174.
  3. Korlach, J., et al., (2015, February) Whole genome sequencing and epigenome characterization of cancer cells using the PacBio platform. Poster presented at Advances in Genome Biology and Technology., Marco Island, FL.

Selected Resources