Phage Genome Annotation: Where to Begin and End

Research output: Contribution to journal › Journal article › Research › peer-review

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Phage Genome Annotation : Where to Begin and End. / Shen, Anastasiya; Millard, Andrew.

In: PHAGE: Therapy, Applications, and Research, Vol. 2, No. 4, 2021, p. 183-193.

Research output: Contribution to journal › Journal article › Research › peer-review

Harvard

Shen, A & Millard, A 2021, 'Phage Genome Annotation: Where to Begin and End', PHAGE: Therapy, Applications, and Research, vol. 2, no. 4, pp. 183-193. https://doi.org/10.1089/phage.2021.0015

APA

Shen, A., & Millard, A. (2021). Phage Genome Annotation: Where to Begin and End. PHAGE: Therapy, Applications, and Research, 2(4), 183-193. https://doi.org/10.1089/phage.2021.0015

Vancouver

Shen A, Millard A. Phage Genome Annotation: Where to Begin and End. PHAGE: Therapy, Applications, and Research. 2021;2(4):183-193. https://doi.org/10.1089/phage.2021.0015

Author

Shen, Anastasiya ; Millard, Andrew. / Phage Genome Annotation : Where to Begin and End. In: PHAGE: Therapy, Applications, and Research. 2021 ; Vol. 2, No. 4. pp. 183-193.

Bibtex

@article{0ae676f3af284c2d9a81dbcf68fa0c26,
title = "Phage Genome Annotation: Where to Begin and End",
abstract = "With the renewed interest in phage research, coupled with the rising accessibility to affordable sequencing, ever increasing numbers of phage genomes are being sequenced. Therefore, there is an increased need to assemble and annotate phage genomes. There is a plethora of tools and platforms that allow phage genomes to be assembled and annotated. The choice of tools can often be bewildering for those new to phage genome assembly. Here we provide an overview of the assembly and annotation process from obtaining raw reads to genome submission, with worked examples, providing those new to genome assembly and annotation with a guided pathway to genome submission. We focus on the use of open access tools that can be incorporated into workflows to allow easy repetition of steps, highlighting multiple tools that can be used and common pitfalls that may occur.",
author = "Anastasiya Shen and Andrew Millard",
year = "2021",
doi = "10.1089/phage.2021.0015",
language = "English",
volume = "2",
pages = "183--193",
journal = "PHAGE: Therapy, Applications, and Research",
issn = "2641-6530",
publisher = "Mary AnnLiebert, Inc. Publishers",
number = "4",

}

RIS

TY - JOUR

T1 - Phage Genome Annotation

T2 - Where to Begin and End

AU - Shen, Anastasiya

AU - Millard, Andrew

PY - 2021

Y1 - 2021

N2 - With the renewed interest in phage research, coupled with the rising accessibility to affordable sequencing, ever increasing numbers of phage genomes are being sequenced. Therefore, there is an increased need to assemble and annotate phage genomes. There is a plethora of tools and platforms that allow phage genomes to be assembled and annotated. The choice of tools can often be bewildering for those new to phage genome assembly. Here we provide an overview of the assembly and annotation process from obtaining raw reads to genome submission, with worked examples, providing those new to genome assembly and annotation with a guided pathway to genome submission. We focus on the use of open access tools that can be incorporated into workflows to allow easy repetition of steps, highlighting multiple tools that can be used and common pitfalls that may occur.

AB - With the renewed interest in phage research, coupled with the rising accessibility to affordable sequencing, ever increasing numbers of phage genomes are being sequenced. Therefore, there is an increased need to assemble and annotate phage genomes. There is a plethora of tools and platforms that allow phage genomes to be assembled and annotated. The choice of tools can often be bewildering for those new to phage genome assembly. Here we provide an overview of the assembly and annotation process from obtaining raw reads to genome submission, with worked examples, providing those new to genome assembly and annotation with a guided pathway to genome submission. We focus on the use of open access tools that can be incorporated into workflows to allow easy repetition of steps, highlighting multiple tools that can be used and common pitfalls that may occur.

U2 - 10.1089/phage.2021.0015

DO - 10.1089/phage.2021.0015

M3 - Journal article

VL - 2

SP - 183

EP - 193

JO - PHAGE: Therapy, Applications, and Research

JF - PHAGE: Therapy, Applications, and Research

SN - 2641-6530

IS - 4

ER -

ID: 326352532