Background In biological sequence analysis, position specific scoring matrices (PSSMs) are
widely used to represent sequence motifs in nucleotide as well as amino acid sequences …

Motivation: Distance measures built on the notion of text compression have been used for
the comparison and classification of entire genomes and mitochondrial genomes. The …

Position weight matrices are an important method for modeling signals or motifs in biological
sequences, both in DNA and protein contexts. In this paper, we present fast algorithms for …

Position-specific scoring matrices are a popular choice for modelling signals or motifs in
biological sequences, both in DNA and protein contexts. A lot of effort has been dedicated to …

A hypercomplex representation of DNA is proposed to facilitate comparing DNA sequences
with fuzzy composition. With the hypercomplex number representation, the conventional …

Fast search algorithms for finding good instances of patterns given as position specific
scoring matrices are developed, and some empirical results on their performance on DNA …

In this article, we propose two quantum algorithms for a problem in bioinformatics, position
weight matrix (PWM) matching, which aims to find segments (sequence motifs) in a …

Position Weight Matrices (PWMs) are broadly used in computational biology. The basic
problems, Scan and MultipleScan, aim to find all the occurrences of a given PWM or a set of …

Both in DNA and protein contexts, an important method for modelling motifs is to utilize
position weight matrix (PWM) in biological sequences. With the development of genome …

This study describes a method to computationally assess the function of homologous
enzymes through small molecule binding interaction energy. Three experimentally …