Literature DB >> 10991547

Finding borders between coding and noncoding DNA regions by an entropic segmentation method.

P Bernaola-Galván1, I Grosse, P Carpena, J L Oliver, R Román-Roldán, H E Stanley.   

Abstract

We present a new computational approach to finding borders between coding and noncoding DNA. This approach has two features: (i) DNA sequences are described by a 12-letter alphabet that captures the differential base composition at each codon position, and (ii) the search for the borders is carried out by means of an entropic segmentation method which uses only the general statistical properties of coding DNA. We find that this method is highly accurate in finding borders between coding and noncoding regions and requires no "prior training" on known data sets. Our results appear to be more accurate than those obtained with moving windows in the discrimination of coding from noncoding DNA.

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Year:  2000        PMID： 10991547     DOI： 10.1103/PhysRevLett.85.1342

Source DB:  PubMed          Journal:  Phys Rev Lett        ISSN： 0031-9007            Impact factor:   9.161


  10 in total

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8.  Detecting the borders between coding and non-coding DNA regions in prokaryotes based on recursive segmentation and nucleotide doublets statistics.

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9.  Sequence space coverage, entropy of genomes and the potential to detect non-human DNA in human samples.

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10.  Comparing segmentations by applying randomization techniques.

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  10 in total

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