Detail publikace

Application of Optimization Algorithms to the Genome Assembly

JUGAS, R.

Originální název

Application of Optimization Algorithms to the Genome Assembly

Typ

článek ve sborníku ve WoS nebo Scopus

Jazyk

angličtina

Originální abstrakt

The paper results from development of new sequencing methods together with the need of suitable genome assembly algorithms. It combines the genomic signal processing, correlation techniques and optimization algorithms for solving assembly task. Genomic signals are made by conversion of letter-based DNA into the form of digital signal, thus the methods of digital signal processing can be applied. Possible overlaps between reads converted into signals are found by computing correlation coefficient similarly to cross-correlation. We acquire simi-larity matrix and the task is to find the path through it achieving minimum distance criterion. For the task, the two optimization techniques were employed: ant colony optimization (ACO) and simulated annealing (SA). The result implies the possibility of using the ACO at the task of creating path through similarly to graph-theory-based algorithms.

Klíčová slova

bioinformatics, genome assembly, genomic signal processing, optimization techniques

Autoři

JUGAS, R.

Vydáno

26. 4. 2018

Nakladatel

Vysoké učení technické v Brně, Fakulta elektrotechniky a komunikačních

Místo

Brno

ISBN

978-80-214-5614-3

Kniha

Proceedings of the 24th Conference STUDENT EEICT 2018

Číslo edice

1

Strany od

595

Strany do

599

Strany počet

5

BibTex

@inproceedings{BUT147132,
  author="Robin {Jugas}",
  title="Application of Optimization Algorithms to the Genome Assembly",
  booktitle="Proceedings of the 24th Conference STUDENT EEICT 2018",
  year="2018",
  number="1",
  pages="595--599",
  publisher="Vysoké učení technické v Brně, Fakulta elektrotechniky a komunikačních",
  address="Brno",
  isbn="978-80-214-5614-3"
}