Identification of coding and non-coding sequences using local Holder exponent formalism.
BACKGROUND
Accurate prediction of genes in genomes has always been a challenging task for bioinformaticians and computational biologists. The discovery of existence of distinct scaling relations in coding and non-coding sequences has led to new perspectives in the understanding of the DNA sequences. This has motivated us to exploit the differences in the local singularity distributions for characterization and classification of coding and non-coding sequences.


RESULTS
The local singularity density distribution in the coding and non-coding sequences of four genomes was first estimated using the wavelet transform modulus maxima methodology. Support vector machines classifier was then trained with the extracted features. The trained classifier is able to provide an average test accuracy of 97.7%. The local singularity features in a DNA sequence can be exploited for successful identification of coding and non-coding sequences.


BACKGROUND
Available on request from bd.kulkarni@ncl.res.in.
Kulkarni
Onkar C
OC
National Chemical Laboratory, Pune, India.
Vigneshwar
R
R
Jayaraman
Valadi K
VK
Kulkarni
Bhaskar D
BD
D000465:Algorithms; D001185:Artificial Intelligence; D001483:Base Sequence; D002874:Chromosome Mapping / Q000379:methods*; D008969:Molecular Sequence Data; D016366:Open Reading Frames / Q000235:genetics*; D010363:Pattern Recognition, Automated / Q000379:methods*; D016415:Sequence Alignment / Q000379:methods*; D017422:Sequence Analysis, DNA / Q000379:methods*