to finding out the genetic structure of iranian native horses, as animal blood samples were obtained from diverse areas of iran, in addition, 114 sequences of equine d-loop region were obtained from genbank. total dna of the samples were extracted through salting out procedure and utilized as template for amplification and sequencing of the d-loop region of mtdna. sequence analysis of the 247-b...

Grammatical inference methods are expected to find grammatical structures hidden in biological sequences. One hopes that studies of grammar serve as an appropriate tool for theory formation. Thus, we have developed JSequitur for automatically generating the grammatical structure of biological sequences in an inference framework of string compression algorithms. Our original motivation was to fi...

We introduce the concept of multiresolutions using vector quantization and hidden Markov models as a basis for alignment-free comparison of sequences. Different similarity measures can be discovered at different resolutions of the two sequences. The proposed approach provides a new aspect for studying the complexity of biological data and is effective for real-time processing.

in this study, the cdna growth hormone (cgh) of the belugasturgeon (husohuso) and russian sturgeon (acipensergueldenstaedtii) were cloned and sequenced, and phylogenetic relationships were examined using nucleic acid and amino acid sequences. the nucleotide sequence of the beluga gh has an open reading frame of 645 nucleotides encoding a protein 214 amino acid residues. the signal peptide cleav...

Biological sequences from different species are called orthologs if they evolved from a sequence of a common ancestor species and they have the same biological function. Approximations of Kolmogorov complexity or entropy of biological sequences are already well known to be useful in extracting similarity information between such sequences — in the interest, for example, of ortholog detection. A...

The fact that biological sequences can be represented as strings belonging to a finite alphabet (A, C, G, and T for DNA) plays an important role in connecting biology to computer science. String representation allows researchers to apply various string comparison techniques available in computer science. As a result, various applications have been developed that facilitate the task of sequence ...

Analysis of large-scale sequential data has become an important task in machine learning and pattern recognition, inspired in part by numerous scientific and technological applications such as the document and text classification or the analysis of music data, or biological sequences. In this work, we consider general, simple 2D matrix representations of sequences, and introduce a class of 2D s...

MOTIVATION Alignment-free sequence comparison methods are still in the early stages of development compared to those of alignment-based sequence analysis. In this paper, we introduce a probabilistic measure of similarity between two biological sequences without alignment. The method is based on the concept of comparing the similarity/dissimilarity between two constructed Markov models. RESULT...