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Assembling short reads from jumping libraries with large insert sizes. / Vasilinetc, I.; Prjibelski, A.D.; Gurevich, A.; Korobeynikov, A.; Pevzner, P.A.

In: Bioinformatics, Vol. 31, No. 20, 2015, p. 3262-3268.

Research output: Contribution to journal › Article

Harvard

Vasilinetc, I, Prjibelski, AD, Gurevich, A, Korobeynikov, A & Pevzner, PA 2015, 'Assembling short reads from jumping libraries with large insert sizes', Bioinformatics, vol. 31, no. 20, pp. 3262-3268. https://doi.org/10.1093/bioinformatics/btv337

APA

Vasilinetc, I., Prjibelski, A. D., Gurevich, A., Korobeynikov, A., & Pevzner, P. A. (2015). Assembling short reads from jumping libraries with large insert sizes. Bioinformatics, 31(20), 3262-3268. https://doi.org/10.1093/bioinformatics/btv337

Vancouver

Vasilinetc I, Prjibelski AD, Gurevich A, Korobeynikov A, Pevzner PA. Assembling short reads from jumping libraries with large insert sizes. Bioinformatics. 2015;31(20):3262-3268. https://doi.org/10.1093/bioinformatics/btv337

Author

Vasilinetc, I. ; Prjibelski, A.D. ; Gurevich, A. ; Korobeynikov, A. ; Pevzner, P.A. / Assembling short reads from jumping libraries with large insert sizes. In: Bioinformatics. 2015 ; Vol. 31, No. 20. pp. 3262-3268.

BibTeX

@article{ee0b975ad9164951aad8077d20eca4f8,
title = "Assembling short reads from jumping libraries with large insert sizes",
abstract = "Motivation: Advances in Next-Generation Sequencing technologies and sample preparation recently enabled generation of high-quality jumping libraries that have a potential to significantly improve short read assemblies. However, assembly algorithms have to catch up with experimental innovations to benefit from them and to produce high-quality assemblies.Results: We present a new algorithm that extends recently described EXSPANDER universal repeat resolution approach to enable its applications to several challenging data types, including jumping libraries generated by the recently developed Illumina Nextera Mate Pair protocol. We demonstrate that, with these improvements, bacterial genomes often can be assembled in a few contigs using only a single Nextera Mate Pair library of short reads.",
author = "I. Vasilinetc and A.D. Prjibelski and A. Gurevich and A. Korobeynikov and P.A. Pevzner",
year = "2015",
doi = "10.1093/bioinformatics/btv337",
language = "English",
volume = "31",
pages = "3262--3268",
journal = "Bioinformatics",
issn = "1367-4803",
publisher = "Oxford University Press",
number = "20",

}

RIS

TY - JOUR

T1 - Assembling short reads from jumping libraries with large insert sizes

AU - Vasilinetc, I.

AU - Prjibelski, A.D.

AU - Gurevich, A.

AU - Korobeynikov, A.

AU - Pevzner, P.A.

PY - 2015

Y1 - 2015

N2 - Motivation: Advances in Next-Generation Sequencing technologies and sample preparation recently enabled generation of high-quality jumping libraries that have a potential to significantly improve short read assemblies. However, assembly algorithms have to catch up with experimental innovations to benefit from them and to produce high-quality assemblies.Results: We present a new algorithm that extends recently described EXSPANDER universal repeat resolution approach to enable its applications to several challenging data types, including jumping libraries generated by the recently developed Illumina Nextera Mate Pair protocol. We demonstrate that, with these improvements, bacterial genomes often can be assembled in a few contigs using only a single Nextera Mate Pair library of short reads.

AB - Motivation: Advances in Next-Generation Sequencing technologies and sample preparation recently enabled generation of high-quality jumping libraries that have a potential to significantly improve short read assemblies. However, assembly algorithms have to catch up with experimental innovations to benefit from them and to produce high-quality assemblies.Results: We present a new algorithm that extends recently described EXSPANDER universal repeat resolution approach to enable its applications to several challenging data types, including jumping libraries generated by the recently developed Illumina Nextera Mate Pair protocol. We demonstrate that, with these improvements, bacterial genomes often can be assembled in a few contigs using only a single Nextera Mate Pair library of short reads.

U2 - 10.1093/bioinformatics/btv337

DO - 10.1093/bioinformatics/btv337

M3 - Article

VL - 31

SP - 3262

EP - 3268

JO - Bioinformatics

JF - Bioinformatics

SN - 1367-4803

IS - 20

ER -

ID: 3979851