Mapping Biomolecular Sequences: Graphical Representations - Their
Origins, Applications and Future Prospects

Nandy, Ashesh

doi:10.2174/1386207324666210510164743

Cited by 1 publication

(1 citation statement)

References 78 publications

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“…Additional applications of circular clustering can also be found in iridology for disease diagnosis [15,16]. Lately, the investigation of cluster analysis methods applied to protein sequences employing polar coordinate representations has also garnered increasing attention and exploration [17,18,19].…”

Section: Introductionmentioning

confidence: 99%

Circular Clustering With Polar Coordinate Reconstruction

Sun,

Sajda

2024

IEEE/ACM Trans. Comput. Biol. and Bioinf.

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There is a growing interest in characterizing circular data found in biological systems. Such data are wide-ranging and varied, from the signal phase in neural recordings to nucleotide sequences in round genomes. Traditional clustering algorithms are often inadequate due to their limited ability to distinguish differences in the periodic component θ. Current clustering schemes for polar coordinate systems have limitations, such as being only angle-focused or lacking generality. To overcome these limitations, we propose a new analysis framework that utilizes projections onto a cylindrical coordinate system to represent objects in a polar coordinate system optimally. Using the mathematical properties of circular data, we show that our approach always finds the correct clustering result within the reconstructed dataset, given sufficient periodic repetitions of the data. This framework is generally applicable and adaptable to most state-of-the-art clustering algorithms. We demonstrate on synthetic and real data that our method generates more appropriate and consistent clustering results than standard methods. In summary, our proposed analysis framework overcomes the limitations of existing polar coordinate-based clustering methods and provides an accurate and efficient way to cluster circular data. We provide the code as open-source on GitHub.

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