Method for the mapping of the local AT/GC ratio along DNA

摘要

The invention relates to a method for analysis of the AT/GC ratio of DNA by stretching the DNA in nanochannels and performing melting mapping of the AT/GC ratio along the DNA molecule.

主权项

1. A method comprising:
applying specific mapping techniques and algorithms for mapping nucleotide features on a target DNA segment of length at least 1 kb base pairs to DNA segment profiles obtained through optical fluorescence images taken after performing melting analysis on a DNA segment of at least 1 kb base pairs which was stretched within a nanofluidic channel and labelled using a fluorescent dye whilst exposed to DNA denaturation conditions, wherein the predetermined mapping techniques and algorithms comprise
time-trace rescaling the set of optical fluorescence images to generate single molecule barcode profiles by aligning the DNA segment profiles to a reference location and processing the DNA segment profiles based upon a first dilation process to filter out longitudinal thermal fluctuations in the DNA segment profiles; andcreating a consensus barcode by aligning the single molecule barcode profiles by maximizing correlation of each single molecule barcode profile with a template profile and applying a second dilation process to account for differences in the profile scaling by minimizing a difference between each DNA segment profile and a template profile.