Fractal and DNA sequence analysis

Amino acid stylization: a new approach for representing protein sequences and scoring protein alignments

This paper introduces a new method for representing protein sequences and scoring alignments by stylizing amino acids, offering customizable parameterization for substitution analysis.

k-mer Distributions of Aminoacid Sequences are Optimised Across the Proteome

The paper investigates species-specificity in amino acid k-mer distributions and shows that factors optimize these distributions across the proteome, affecting most proteins and being more pronounced in structured regions.

The importance of Chargaff’s second parity rule for genomic signatures in metagenomics

The paper evaluates genomic signatures for metagenomics, finding that Chargaff’s second parity rule reduces strand dependence and introduces two novel signatures that improve performance.