Cargando…
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...
Autores principales: | , , , , |
---|---|
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 |
_version_ | 1783231579511848960 |
---|---|
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. |
format | Online Article Text |
id | pubmed-5404331 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2017 |
publisher | Nature Publishing Group |
record_format | MEDLINE/PubMed |
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 |
work_keys_str_mv | AT mandalsaurav complexmultifractalnatureinmycobacteriumtuberculosisgenome AT roychowdhurytanmoy complexmultifractalnatureinmycobacteriumtuberculosisgenome AT chiromkeilash complexmultifractalnatureinmycobacteriumtuberculosisgenome AT bhattacharyaalok complexmultifractalnatureinmycobacteriumtuberculosisgenome AT brojensinghrk complexmultifractalnatureinmycobacteriumtuberculosisgenome |