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Complex multifractal nature in Mycobacterium tuberculosis genome

The mutifractal and long range correlation (C(r)) properties of strings, such as nucleotide sequence can be a useful parameter for identification of underlying patterns and variations. In this study C(r) and multifractal singularity function f(α) have been used to study variations in the genomes of...

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Autores principales: Mandal, Saurav, Roychowdhury, Tanmoy, Chirom, Keilash, Bhattacharya, Alok, Brojen Singh, R. K.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5404331/
https://www.ncbi.nlm.nih.gov/pubmed/28440326
http://dx.doi.org/10.1038/srep46395
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author Mandal, Saurav
Roychowdhury, Tanmoy
Chirom, Keilash
Bhattacharya, Alok
Brojen Singh, R. K.
author_facet Mandal, Saurav
Roychowdhury, Tanmoy
Chirom, Keilash
Bhattacharya, Alok
Brojen Singh, R. K.
author_sort Mandal, Saurav
collection PubMed
description The mutifractal and long range correlation (C(r)) properties of strings, such as nucleotide sequence can be a useful parameter for identification of underlying patterns and variations. In this study C(r) and multifractal singularity function f(α) have been used to study variations in the genomes of a pathogenic bacteria Mycobacterium tuberculosis. Genomic sequences of M. tuberculosis isolates displayed significant variations in C(r) and f(α) reflecting inherent differences in sequences among isolates. M. tuberculosis isolates can be categorised into different subgroups based on sensitivity to drugs, these are DS (drug sensitive isolates), MDR (multi-drug resistant isolates) and XDR (extremely drug resistant isolates). C(r) follows significantly different scaling rules in different subgroups of isolates, but all the isolates follow one parameter scaling law. The richness in complexity of each subgroup can be quantified by the measures of multifractal parameters displaying a pattern in which XDR isolates have highest value and lowest for drug sensitive isolates. Therefore C(r) and multifractal functions can be useful parameters for analysis of genomic sequences.
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spelling pubmed-54043312017-04-27 Complex multifractal nature in Mycobacterium tuberculosis genome Mandal, Saurav Roychowdhury, Tanmoy Chirom, Keilash Bhattacharya, Alok Brojen Singh, R. K. Sci Rep Article The mutifractal and long range correlation (C(r)) properties of strings, such as nucleotide sequence can be a useful parameter for identification of underlying patterns and variations. In this study C(r) and multifractal singularity function f(α) have been used to study variations in the genomes of a pathogenic bacteria Mycobacterium tuberculosis. Genomic sequences of M. tuberculosis isolates displayed significant variations in C(r) and f(α) reflecting inherent differences in sequences among isolates. M. tuberculosis isolates can be categorised into different subgroups based on sensitivity to drugs, these are DS (drug sensitive isolates), MDR (multi-drug resistant isolates) and XDR (extremely drug resistant isolates). C(r) follows significantly different scaling rules in different subgroups of isolates, but all the isolates follow one parameter scaling law. The richness in complexity of each subgroup can be quantified by the measures of multifractal parameters displaying a pattern in which XDR isolates have highest value and lowest for drug sensitive isolates. Therefore C(r) and multifractal functions can be useful parameters for analysis of genomic sequences. Nature Publishing Group 2017-04-25 /pmc/articles/PMC5404331/ /pubmed/28440326 http://dx.doi.org/10.1038/srep46395 Text en Copyright © 2017, The Author(s) http://creativecommons.org/licenses/by/4.0/ This work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/
spellingShingle Article
Mandal, Saurav
Roychowdhury, Tanmoy
Chirom, Keilash
Bhattacharya, Alok
Brojen Singh, R. K.
Complex multifractal nature in Mycobacterium tuberculosis genome
title Complex multifractal nature in Mycobacterium tuberculosis genome
title_full Complex multifractal nature in Mycobacterium tuberculosis genome
title_fullStr Complex multifractal nature in Mycobacterium tuberculosis genome
title_full_unstemmed Complex multifractal nature in Mycobacterium tuberculosis genome
title_short Complex multifractal nature in Mycobacterium tuberculosis genome
title_sort complex multifractal nature in mycobacterium tuberculosis genome
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5404331/
https://www.ncbi.nlm.nih.gov/pubmed/28440326
http://dx.doi.org/10.1038/srep46395
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