Analyzing genomic data using tensor-based orthogonal polynomials with application to synthetic RNAs.

ABSTRACT: An important goal in molecular biology is to quantify both the patterns across a genomic sequence and the relationship between phenotype and underlying sequence. We propose a multivariate tensor-based orthogonal polynomial approach to characterize nucleotides or amino acids in a given sequence and map corresponding phenotypes onto the sequence space. We have applied this method to a previously published case of small transcription activating RNAs. Covariance patterns along the sequence showcased strong correlations between nucleotides at the ends of the sequence. However, when the phenotype is projected onto the sequence space, this pattern does not emerge. When doing second order analysis and quantifying the functional relationship between the phenotype and pairs of sites along the sequen

SUBMITTER: Nafees S 

PROVIDER: S-EPMC7731874 | biostudies-literature | 2020 Dec

REPOSITORIES: biostudies-literature