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Type
ArticleAuthors
Nakamura, YojiYasuike, Motoshige
Nishiki, Issei
Iwasaki, Yuki
Fujiwara, Atushi
Kawato, Yasuhiko
Nakai, Toshihiro
Nagai, Satoshi
Kobayashi, Takanori
Gojobori, Takashi

Ototake, Mitsuru
KAUST Department
Biological and Environmental Sciences and Engineering (BESE) DivisionBioscience Program
Computational Bioscience Research Center (CBRC)
Date
2015-10-25Online Publication Date
2015-10-25Print Publication Date
2016-02Permanent link to this record
http://hdl.handle.net/10754/581472
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Next-generation sequencing technologies have allowed the rapid determination of the complete genomes of many organisms. Although shotgun sequences from large genome organisms are still difficult to reconstruct perfect contigs each of which represents a full chromosome, those from small genomes have been assembled successfully into a very small number of contigs. In this study, we show that shotgun reads from phage genomes can be reconstructed into a single contig by controlling the number of read sequences used in de novo assembly. We have developed a pipeline to assemble small viral genomes with good reliability using a resampling method from shotgun data. This pipeline, named V-GAP (Viral Genome Assembly Pipeline), will contribute to the rapid genome typing of viruses, which are highly divergent, and thus will meet the increasing need for viral genome comparisons in metagenomic studies.Citation
V-GAP: Viral genome assembly pipeline 2015 GenePublisher
Elsevier BVJournal
GenePubMed ID
26475935Additional Links
http://linkinghub.elsevier.com/retrieve/pii/S0378111915012378ae974a485f413a2113503eed53cd6c53
10.1016/j.gene.2015.10.029
Scopus Count
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