Τίτλος:
Statistical algorithms for long DNA sequences: Oligonucleotide distributions and homogeneity maps
Γλώσσες Τεκμηρίου:
Αγγλικά
Περίληψη:
The statistical properties of oligonucleotide appearances within long DNA sequences often reveal useful characteristics of the corresponding DNA areas. Two algorithms to statistically analyze oligonucleotide appearances within long DNA sequences in genome banks are presented. The first algorithm determines statistical indices for arbitrary length oligonucleotides within arbitrary length DNA sequences. The critical exponent μ of the distance distribution between consecutive occurrences of the same oligonucleotide is calculated and its value is shown to characterize the functionality of the oligonucleotide. The second algorithm searches for areas with variable homogeneity, based on the density of oligonucleotides. The two algorithms have been applied to representative eucaryotes (the animal Mus musculusand the plant Arabidopsis thaliana) and interesting results were obtained, confirmed by biological observations. All programs are open source and publicly available on our web site. © 2005-IOS Press and the authors. All rights reserved.
Συγγραφείς:
Katsaloulis, P.
Theoharis, T.
Provata, A.
Περιοδικό:
Scientific Programming
Λέξεις-κλειδιά:
Biomechanics; Genes; Genetic algorithms; Mathematical techniques, Arbitrary length oligonucleotides; Genome banks; Oligonucleotide distributions; Variable homogeneity, DNA sequences
