Characterization of the structure of long RNA molecules (>1 kb) is usually a time-consuming and tedious process. In this study, we have developed an imaging procedure for obtaining images of the extended secondary structures of long RNA molecules combined with automated MATLAB-based data processing algorithms for identification of the domain architecture of the molecules in these images. These algorithms include a molecule autoselection procedure based on height and area thresholding, a morphological thinning procedure to generate skeletons of the molecule in order to analyze the branched structure of the molecules, and a procedure to generate local volume profiles along the main chain of the molecule for identification of domains and prediction of the number of nucleotides comprising each domain. The single-molecule nature of this technique also allows for the identification of varying conformations of the molecule and assessment of the conformational flexibility of the identified domain organization.
CITATION STYLE
Gilmore, J. L., Yoshida, A., Deguchi, K., Asai, S., Aizaki, H., Kumeta, M., … Takeyasu, K. (2017). Structural analysis of long single-stranded RNA molecules with atomic force microscopy imaging. In Springer Proceedings in Physics (Vol. 186, pp. 3–9). Springer Science and Business Media, LLC. https://doi.org/10.1007/978-3-319-46601-9_1
Mendeley helps you to discover research relevant for your work.