Database of Periodic DNA Regions in Major Genomes

We analyzed several prokaryotic and eukaryotic genomes looking for the periodicity sequences availability and employing a new mathematical method. The method envisaged using the random position weight matrices and dynamic programming. Insertions and deletions were allowed inside periodicities, thus...

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Published in:BioMed research international 2017-01, Vol.2017 (2017), p.1-9
Main Authors: Frenkel, Felix E., Korotkov, Eugene, Korotkova, Maria A.
Format: Article
Language:English
Subjects:
Animals
Arabidopsis - genetics
Caenorhabditis elegans - genetics
Chromosomes
Chromosomes - genetics
Deoxyribonucleic acid
DNA
DNA sequencing
Drosophila melanogaster - genetics
Fourier transforms
Genes
Genome
Genomes
Humans
INDEL Mutation - genetics
Methods
Models, Theoretical
Nucleotide sequencing
Prokaryotic Cells
Sequence Analysis, DNA
Wavelet transforms
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creator Frenkel, Felix E.
Korotkov, Eugene
Korotkova, Maria A.
description We analyzed several prokaryotic and eukaryotic genomes looking for the periodicity sequences availability and employing a new mathematical method. The method envisaged using the random position weight matrices and dynamic programming. Insertions and deletions were allowed inside periodicities, thus adding a novelty to the results we obtained. A periodicity length, one of the key periodicity features, varied from 2 to 50 nt. Totally over 60,000 periodicity sequences were found in 15 genomes including some chromosomes of the H. sapiens (partial), C. elegans, D. melanogaster, and A. thaliana genomes.
doi_str_mv 10.1155/2017/7949287
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The method envisaged using the random position weight matrices and dynamic programming. Insertions and deletions were allowed inside periodicities, thus adding a novelty to the results we obtained. A periodicity length, one of the key periodicity features, varied from 2 to 50 nt. Totally over 60,000 periodicity sequences were found in 15 genomes including some chromosomes of the H. sapiens (partial), C. elegans, D. melanogaster, and A. thaliana genomes.</description><identifier>ISSN: 2314-6133</identifier><identifier>EISSN: 2314-6141</identifier><identifier>DOI: 10.1155/2017/7949287</identifier><identifier>PMID: 28182099</identifier><language>eng</language><publisher>Cairo, Egypt: Hindawi Publishing Corporation</publisher><subject>Animals ; Arabidopsis - genetics ; Caenorhabditis elegans - genetics ; Chromosomes ; Chromosomes - genetics ; Deoxyribonucleic acid ; DNA ; DNA sequencing ; Drosophila melanogaster - genetics ; Fourier transforms ; Genes ; Genome ; Genomes ; Humans ; INDEL Mutation - genetics ; Methods ; Models, Theoretical ; Nucleotide sequencing ; Prokaryotic Cells ; Sequence Analysis, DNA ; Wavelet transforms</subject><ispartof>BioMed research international, 2017-01, Vol.2017 (2017), p.1-9</ispartof><rights>Copyright © 2017 Felix E. 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subjects Animals
Arabidopsis - genetics
Caenorhabditis elegans - genetics
Chromosomes
Chromosomes - genetics
Deoxyribonucleic acid
DNA
DNA sequencing
Drosophila melanogaster - genetics
Fourier transforms
Genes
Genome
Genomes
Humans
INDEL Mutation - genetics
Methods
Models, Theoretical
Nucleotide sequencing
Prokaryotic Cells
Sequence Analysis, DNA
Wavelet transforms
title Database of Periodic DNA Regions in Major Genomes
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