A bioinformatics tool for the accelerated diagnosis of multiple viral infections in crops using next generation sequencing.

Torrance, Lesley (PI)

Project: Standard

Acronym	A bioinformatics tool for the accelerate
Status	Finished
Effective start/end date	17/10/16 → 16/01/18

Funding

BBSRC: £119,266.14

UN Sustainable Development Goals

In 2015, UN member states agreed to 17 global Sustainable Development Goals (SDGs) to end poverty, protect the planet and ensure prosperity for all. This project contributes towards the following SDG(s):

2 Review article
1 Article

Potato virus Y emergence and evolution from the Andes of South America to become a major destructive pathogen of potato and other solanaceous crops worldwide
Torrance, L. & Talianksy, M. E., 12 Dec 2020, In: Viruses. 12, 12, 14 p., 1430.
Research output: Contribution to journal › Review article › peer-review

Open Access
File
Kodoja: a workflow for virus detection in plants using k-mer analysis of RNA-sequencing data
Baizan-Edge, A., Cock, P., MacFarlane, S., McGavin, W., Torrance, L. & Jones, S., 1 Mar 2019, In: Journal of General Virology. 100, p. 533-542
Research output: Contribution to journal › Article › peer-review

Open Access
File
Viral diagnostics in plants using next generation sequencing: Computational analysis in practice
Jones, S., Baizan-Edge, A., MacFarlane, S. & Torrance, L., 24 Oct 2017, In: Frontiers in Plant Science. 8, 10 p., 1770.
Research output: Contribution to journal › Review article › peer-review

Open Access
File

Kodoja: A workflow for virus detection in plants using k-mer analysis of RNA-sequencing data (software)
Baizan Edge, A. (Creator), Cock, P. (Creator), MacFarlane, S. (Creator), McGavin, W. (Creator), Torrance, L. (Creator) & Jones, S. (Creator), GitHub, 2018
https://github.com/abaizan/kodoja
Dataset: Software
K-mer databases of plant virus sequences for use with the Kodoja workflow
Baizan Edge, A. (Creator), Cock, P. (Creator), MacFarlane, S. (Creator), McGavin, W. (Creator), Torrance, L. (Creator) & Jones, S. (Creator), Zenodo, 4 Sept 2018
DOI: 10.5281/zenodo.1406071
Dataset

A bioinformatics tool for the accelerated diagnosis of multiple viral infections in crops using next generation sequencing.

Project Details

Funding

UN Sustainable Development Goals

Fingerprint

Potato virus Y emergence and evolution from the Andes of South America to become a major destructive pathogen of potato and other solanaceous crops worldwide

Kodoja: a workflow for virus detection in plants using k-mer analysis of RNA-sequencing data

Viral diagnostics in plants using next generation sequencing: Computational analysis in practice

Kodoja: A workflow for virus detection in plants using k-mer analysis of RNA-sequencing data (software)

K-mer databases of plant virus sequences for use with the Kodoja workflow

A bioinformatics tool for the accelerated diagnosis of multiple viral infections in crops using next generation sequencing.

Project Details

Funding

UN Sustainable Development Goals

Fingerprint

Research output

Potato virus Y emergence and evolution from the Andes of South America to become a major destructive pathogen of potato and other solanaceous crops worldwide

Kodoja: a workflow for virus detection in plants using k-mer analysis of RNA-sequencing data

Viral diagnostics in plants using next generation sequencing: Computational analysis in practice

Datasets

Kodoja: A workflow for virus detection in plants using k-mer analysis of RNA-sequencing data (software)

K-mer databases of plant virus sequences for use with the Kodoja workflow