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MADĚRÁNKOVÁ, D. SEDLÁŘ, K. VÍTEK, M. ŠKUTKOVÁ, H.
Original Title
The identification of replication origin in bacterial genomes by cumulated phase signal
Type
conference paper
Language
English
Original Abstract
The origin of replication (oriC) plays an important role in the cell cycle as the place where DNA replication is initiated. In bacterial cells, a single replication origin can be found and its correct identification is necessary in the annotation process of newly sequenced genomes. Although the rearrangement of a whole genome sequence according to oriC should be a standard procedure, public databases still contain lots of genomes starting at a random place. This situation complicates the comparative analysis of whole bacterial genomes as only two genomes rearranged according to oriC can be reliably aligned. In this paper, we present a novel technique for oriC prediction based exclusively on utilization of cumulated phase signal which distinguishes our approach from current techniques combining application of genomic signal processing techniques with a standard character based comparison. Proposed technique is therefore fast and suitably complements the current pipeline for comparison of whole bacterial genomes by aligned downsampled signals.
Keywords
cumulated phase, origin of replication, oriC, genomic signal, bacteria
Authors
MADĚRÁNKOVÁ, D.; SEDLÁŘ, K.; VÍTEK, M.; ŠKUTKOVÁ, H.
Released
5. 10. 2017
Publisher
IEEE
ISBN
978-1-4673-8988-4
Book
2017 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB)
Pages from
267
Pages to
271
Pages count
5
URL
http://ieeexplore.ieee.org/abstract/document/8058561/
BibTex
@inproceedings{BUT140330, author="Denisa {Maděránková} and Karel {Sedlář} and Martin {Vítek} and Helena {Vítková}", title="The identification of replication origin in bacterial genomes by cumulated phase signal", booktitle="2017 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB)", year="2017", pages="267--271", publisher="IEEE", doi="10.1109/CIBCB.2017.8058561", isbn="978-1-4673-8988-4", url="http://ieeexplore.ieee.org/abstract/document/8058561/" }