Publication detail

Entropy-Based Detection of Genetic Markers for Bacteria Genotyping

NYKRÝNOVÁ, M. MADĚRÁNKOVÁ, D. BARTOŇ, V. BEZDÍČEK, M. LENGEROVÁ, M. ŠKUTKOVÁ, H.

Original Title

Entropy-Based Detection of Genetic Markers for Bacteria Genotyping

English Title

Entropy-Based Detection of Genetic Markers for Bacteria Genotyping

Type

conference paper

Language

en

Original Abstract

Genotyping is necessary for the discrimination of bacteria strains. However, methods such as multilocus sequence typing (MLST) or minim typing (mini-MLST) use a combination of several genes. In this paper, we present an augmented method for typing Klebsiella pneumoniae using highly variable fragments of its genome. These fragments were identified based on the entropy of the individual positions. Our method employs both coding and non-coding parts of the genome. These findings may lead to decrease in the number of variable parts used in genotyping and to make laboratory methods faster and cheaper.

English abstract

Genotyping is necessary for the discrimination of bacteria strains. However, methods such as multilocus sequence typing (MLST) or minim typing (mini-MLST) use a combination of several genes. In this paper, we present an augmented method for typing Klebsiella pneumoniae using highly variable fragments of its genome. These fragments were identified based on the entropy of the individual positions. Our method employs both coding and non-coding parts of the genome. These findings may lead to decrease in the number of variable parts used in genotyping and to make laboratory methods faster and cheaper.

Keywords

Genotyping;Entropy;Klebsiella pneumoniae;Minim typing

Released

13.04.2019

ISBN

978-3-030-17934-2

Book

Bioinformatics and Biomedical Engineering. IWBBIO 2019.

Edition number

11466

Pages from

177

Pages to

188

Pages count

12

BibTex


@inproceedings{BUT156901,
  author="Markéta {Nykrýnová} and Denisa {Maděránková} and Vojtěch {Bartoň} and Matěj {Bezdíček} and Martina {Lengerová} and Helena {Škutková}",
  title="Entropy-Based Detection of Genetic Markers for Bacteria Genotyping",
  annote="Genotyping is necessary for the discrimination of bacteria strains. However, methods such as multilocus sequence typing (MLST) or minim typing (mini-MLST) use a combination of several genes. In this paper, we present an augmented method for typing Klebsiella pneumoniae using highly variable fragments of its genome. These fragments were identified based on the entropy of the individual positions. Our method employs both coding and non-coding parts of the genome. These findings may lead to decrease in the number of variable parts used in genotyping and to make laboratory methods faster and cheaper.",
  booktitle="Bioinformatics and Biomedical Engineering. IWBBIO 2019.",
  chapter="156901",
  doi="10.1007/978-3-030-17935-9_17",
  howpublished="print",
  year="2019",
  month="april",
  pages="177--188",
  type="conference paper"
}