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WGS analysis and interpretation in clinical and public health microbiology laboratories: what are the requirements and how do existing tools compare?
Citation
Wyres, KL and Conway, TC and Garg, SK and Queiroz, C and Reumann, M and Holt, K and Rusu, LI, WGS analysis and interpretation in clinical and public health microbiology laboratories: what are the requirements and how do existing tools compare?, Pathogens, 3, (2) pp. 437-458. ISSN 2076-0817 (2014) [Refereed Article]
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Copyright Statement
Licensed under Creative Commons Attribution 3.0 Unported (CC BY 3.0) http://creativecommons.org/licenses/by/3.0/
DOI: doi:10.3390/pathogens3020437
Abstract
Recent advances in DNA sequencing technologies have the potential to transform the field of clinical and public health microbiology, and in the last few years numerous case studies have demonstrated successful applications in this context. Among other considerations, a lack of user-friendly data analysis and interpretation tools has been frequently cited as a major barrier to routine use of these techniques. Here we consider the requirements of microbiology laboratories for the analysis, clinical interpretation and management of bacterial whole-genome sequence (WGS) data. Then we discuss relevant, existing WGS analysis tools. We highlight many essential and useful features that are represented among existing tools, but find that no single tool fulfils all of the necessary requirements. We conclude that to fully realise the potential of WGS analyses for clinical and public health microbiology laboratories of all scales, we will need to develop tools specifically with the needs of these laboratories in mind.
Item Details
| Item Type: | Refereed Article |
|---|---|
| Keywords: | genomics, microbiology, clinical, public health, bioinformatics |
| Research Division: | Information and Computing Sciences |
| Research Group: | Information systems |
| Research Field: | Information security management |
| Objective Division: | Information and Communication Services |
| Objective Group: | Information systems, technologies and services |
| Objective Field: | Information systems, technologies and services not elsewhere classified |
| UTAS Author: | Garg, SK (Dr Saurabh Garg) |
| ID Code: | 93812 |
| Year Published: | 2014 |
| Deposited By: | Information and Communication Technology |
| Deposited On: | 2014-08-19 |
| Last Modified: | 2018-01-28 |
| Downloads: | 314 View Download Statistics |
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