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Models of Low-Dimensional Vector-Fuzzy Representations of Genetic Sequences and Amino Acids
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DOI：10.3390/appliedmath6030039.png)
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Abstract
En 中文
Genetic sequences play a central role in biological and medical research, and mathematics provides powerful means for their representation and analysis. Conventional approaches, such as the fuzzy polynucleotide space [0, 1]12, model codons as 12-dimensional vectors, but this comes at the cost of high dimensionality. In this study, we introduce two new models, Vector-Fuzzy-I and Vector-Fuzzy-II, that map codons and genetic sequences into the 4-dimensional Euclidean space & Ropf;4 using vector algebra and fuzzy set theory. In the first model, sequence structure is represented by successive vector addition, while in the second, it is represented by positional frequencies normalized by nucleotide locations. These low-dimensional representations are unique, preserve sequence order, and allow effective measurement of similarity and difference via Euclidean metrics. Compared with the fuzzy polynucleotide space, the proposed models achieve dimensionality reduction while enhancing the resolution of sequence differentiation. Our approach offers new mathematical perspectives for sequence analysis in theoretical biology.
Keywords:
DNA
RNA
amino acid
pseudo amino acid composition
polynucleotides
vectors
fuzzy sets
Euclidean metric
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IF:
0.7
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111
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