DNA barcode by flossing through a cylindrical nanopore. Issue 34 (10th June 2021)

• Record Type: Journal Article
• Authors: Seth, Swarnadeep; Bhattacharya, Aniket
• Is Part Of: RSC advances. Volume 11:Issue 34(2021)
• Page Start: 20781
• Page End: 20787
• Publication Date: 2021-06-10
• Subjects: Chemistry -- Periodicals; 540.5
• DOI: 10.1039/d1ra00349f
• Languages: English
• ISSNs: 2046-2069

Abstract

Abstract : We report a method for DNA barcoding from the dwell time measurement of protein tags (barcodes) along the DNA backbone using Brownian dynamics simulation of a model DNA and use a recursive scheme to improve the measurements to almost 100% accuracy. Abstract : We report an accurate method to determine DNA barcodes from the dwell time measurement of protein tags (barcodes) along the DNA backbone using Brownian dynamics simulation of a model DNA and use a recursive theoretical scheme which improves the measurements to almost 100% accuracy. The heavier protein tags along the DNA backbone introduce a large speed variation in the chain that can be understood using the idea of non-equilibrium tension propagation theory. However, from an initial rough characterization of velocities into "fast" (nucleotides) and "slow" (protein tags) domains, we introduce a physically motivated interpolation scheme that enables us to determine the barcode velocities rather accurately. Our theoretical analysis of the motion of the DNA through a cylindrical nanopore opens up the possibility of its experimental realization and carries over to multi-nanopore devices used for barcoding.