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- W1865596980 abstract "Optical DNA mapping is a technique for obtaining fast DNA sequence dependent barcodes by observing the stained DNA with a microscope, while it is held stretched inside a nanochannel. Noise plays an important role in optical maps and can significantly change the features in a barcode. One way to reduce random noise is to time average many time frame measurements. This method is efficient but requires time, saving more data and involves a computationally demanding process of alignment. For this reason, certain groups opt for measuring only one time frame image. This project is divided in two parts, the first one aims at studying the possible implementation of a low-pass filter to reduce noise in single-time-frame barcodes. A Sinc-Windowed filter and the Wiener-Kolmogorov filter are applied on 11600 barcodes and it is found that they both effectively reduce noise. The second part of the project seeks to improve the current method of stretching DNA barcodes via interpolation. Stretching of barcodes is needed for comparing DNA barcodes under different experimental conditions (different salt concentrations, channel diameters, etc.). The proposed approach is based on deconvolving the signal using the Wiener-Helstrom filter and interpolating the deconvolved intensity instead of the measured one, in order to preserve the original width of the Point Spread Function of the system. As a result, the stretched barcode is less blurred and has more resolvable peaks when it undergoes a process of deconvolution before the interpolation. (Less)" @default.
- W1865596980 created "2016-06-24" @default.
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- W1865596980 date "2015-01-01" @default.
- W1865596980 modified "2023-09-27" @default.
- W1865596980 title "Noise filtering and deconvolution of DNA barcodes" @default.
- W1865596980 hasPublicationYear "2015" @default.
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