Abstract

Methylation at the 5-carbon position of the cytosine nucleotide base in DNA has been shown to be a reliable diagnostic biomarker for carcinogenesis. Early detection of methylation and intervention could drastically increase the effectiveness of therapy and reduce the cancer mortality rate. Current methods for detecting methylation involve bisulfite genomic sequencing, which are cumbersome and demand a large sample size of bodily fluids to yield accurate results. Hence, more efficient and cost effective methods are desired. Based on our previous work, we present a novel nanopore-based assay using a nanopore in a MoS2 membrane, and the methyl-binding protein (MBP), MBD1x, to detect methylation on dsDNA. We show that the dsDNA translocation was effectively slowed down using an asymmetric concentration of buffer and explore the possibility of profiling the position of methylcytosines on the DNA strands as they translocate through the 2D membrane. Our findings advance us one step closer towards the possible use of nanopore sensing technology in medical applications such as cancer detection.

Original languageEnglish (US)
Pages (from-to)14836-14845
Number of pages10
JournalNanoscale
Volume9
Issue number39
DOIs
StatePublished - Oct 31 2017

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Methylation
Nanopores
Membranes
Cytosine Nucleotides
DNA
Medical applications
Biomarkers
Nucleotides
Assays
Carrier Proteins
Buffers
Carbon
Fluids
Costs

ASJC Scopus subject areas

  • Materials Science(all)

Cite this

Shim, J., Banerjee, S., Qiu, H., Smithe, K. K. H., Estrada, D., Bello, J., ... Bashir, R. (2017). Detection of methylation on dsDNA using nanopores in a MoS2 membrane. Nanoscale, 9(39), 14836-14845. https://doi.org/10.1039/c7nr03092d

Detection of methylation on dsDNA using nanopores in a MoS2 membrane. / Shim, Jiwook; Banerjee, Shouvik; Qiu, Hu; Smithe, Kirby K.H.; Estrada, David; Bello, Julian; Pop, Eric; Schulten, Klaus; Bashir, Rashid.

In: Nanoscale, Vol. 9, No. 39, 31.10.2017, p. 14836-14845.

Research output: Contribution to journalArticle

Shim, J, Banerjee, S, Qiu, H, Smithe, KKH, Estrada, D, Bello, J, Pop, E, Schulten, K & Bashir, R 2017, 'Detection of methylation on dsDNA using nanopores in a MoS2 membrane', Nanoscale, vol. 9, no. 39, pp. 14836-14845. https://doi.org/10.1039/c7nr03092d
Shim J, Banerjee S, Qiu H, Smithe KKH, Estrada D, Bello J et al. Detection of methylation on dsDNA using nanopores in a MoS2 membrane. Nanoscale. 2017 Oct 31;9(39):14836-14845. https://doi.org/10.1039/c7nr03092d
Shim, Jiwook ; Banerjee, Shouvik ; Qiu, Hu ; Smithe, Kirby K.H. ; Estrada, David ; Bello, Julian ; Pop, Eric ; Schulten, Klaus ; Bashir, Rashid. / Detection of methylation on dsDNA using nanopores in a MoS2 membrane. In: Nanoscale. 2017 ; Vol. 9, No. 39. pp. 14836-14845.
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