Detail publikace

Method for improving the consensus sequence from NGS data based on reads classification

NYKRÝNOVÁ, M. ŠKUTKOVÁ, H.

Originální název

Method for improving the consensus sequence from NGS data based on reads classification

Typ

článek ve sborníku ve WoS nebo Scopus

Jazyk

angličtina

Originální abstrakt

Nowadays, next-generation sequencing is on the rise as a cost of sequencing is constantly dropping. However, the processing of the sequence data remains problematic as the algorithms for reference-based assembly are both computationally and time-demanding. Moreover, resulting assembly is still imperfect. In this paper, we present a new method for improving the quality of the consensus sequence from the assembled data. We examine the regions in the consensus sequence, which show a high number of ambiguous nucleotides. Using a classification of reads covering these regions, we try to reduce the number of ambiguous nucleotides in the consensus. This improved consensus sequence then can be used for bacteria typing and precise discrimination of bacteria strains.

Klíčová slova

sequencing; ambiguous nucleotides; genome assembly; consensus calling; cluster analysis

Autoři

NYKRÝNOVÁ, M.; ŠKUTKOVÁ, H.

Vydáno

9. 9. 2019

Nakladatel

Vysoké učení technické v Brně, Fakulta elektrotechniky a komunikačních technologií

Místo

Brno

ISBN

978-80-214-5781-2

Kniha

Proceedings of IEEE Student Branch Conference Mikulov 2019

Číslo edice

první

Strany od

6

Strany do

9

Strany počet

4

URL

http://www.radio.feec.vutbr.cz/ieee/userfiles/downloads/archive/2019-Mikulov/sbornik.pdf

BibTex

@inproceedings{BUT158994,
  author="Markéta {Jakubíčková} and Helena {Vítková}",
  title="Method for improving the consensus sequence from NGS data based on reads classification",
  booktitle="Proceedings of IEEE Student Branch Conference Mikulov 2019",
  year="2019",
  number="první",
  pages="6--9",
  publisher="Vysoké učení technické v Brně, Fakulta elektrotechniky a komunikačních technologií",
  address="Brno",
  isbn="978-80-214-5781-2",
  url="http://www.radio.feec.vutbr.cz/ieee/userfiles/downloads/archive/2019-Mikulov/sbornik.pdf"
}