Detail publikačního výsledku

LTRFIND: A Novel Algorithm for Human de novo LTR Retrotransposons Identification

SEDLÁŘ, K.; PROVAZNÍK, I.

Originální název

LTRFIND: A Novel Algorithm for Human de novo LTR Retrotransposons Identification

Anglický název

LTRFIND: A Novel Algorithm for Human de novo LTR Retrotransposons Identification

Druh

Stať ve sborníku v databázi WoS či Scopus

Originální abstrakt

Modern LTR retrotransposons identification is mainly based on similarity searching using databases of known retroviruses. Nowadays, when various human genomes are available, this approach is not fast enough. Unlike the other species, human LTR retrotransposons are inactive and modified so similarity searches can hardly find these strongly mutated or previously unknown retroelements. In this paper, we present a novel algorithm for de novo identification of human LTR retrotransposons. Considering features of the human genome, we designed heuristic algorithm based on identification of long terminal repeats. Employ of exact sting match seed technique brings a very efficient search with reasonable sensitivity.

Anglický abstrakt

Modern LTR retrotransposons identification is mainly based on similarity searching using databases of known retroviruses. Nowadays, when various human genomes are available, this approach is not fast enough. Unlike the other species, human LTR retrotransposons are inactive and modified so similarity searches can hardly find these strongly mutated or previously unknown retroelements. In this paper, we present a novel algorithm for de novo identification of human LTR retrotransposons. Considering features of the human genome, we designed heuristic algorithm based on identification of long terminal repeats. Employ of exact sting match seed technique brings a very efficient search with reasonable sensitivity.

Klíčová slova

retrotransposons, LTR, human genome, exact string match

Klíčová slova v angličtině

retrotransposons, LTR, human genome, exact string match

Autoři

SEDLÁŘ, K.; PROVAZNÍK, I.

Vydáno

24.04.2014

Nakladatel

LITERA

Místo

Brno

ISBN

978-80-214-4924-4

Kniha

Proceedings of the 20th Conference STUDENT EEICT 2014

Strany od

242

Strany do

246

Strany počet

5

Plný text v Digitální knihovně

http://hdl.handle.net/

BibTex

@inproceedings{BUT107299,
  author="Karel {Sedlář} and Valentýna {Provazník}",
  title="LTRFIND: A Novel Algorithm for Human de novo LTR Retrotransposons Identification",
  booktitle="Proceedings of the 20th Conference STUDENT EEICT 2014",
  year="2014",
  number="1.",
  pages="242--246",
  publisher="LITERA",
  address="Brno",
  isbn="978-80-214-4924-4"
}