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Pathogens 2014, 3(2), 258-279; doi:10.3390/pathogens3020258
Review

High-Throughput Sequencing, a VersatileWeapon to Support Genome-Based Diagnosis in Infectious Diseases: Applications to Clinical Bacteriology

1,4,* , 2,4
 and 1,3,4
Received: 20 November 2013; in revised form: 28 February 2014 / Accepted: 20 March 2014 / Published: 2 April 2014
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Abstract: The recent progresses of high-throughput sequencing (HTS) technologies enable easy and cost-reduced access to whole genome sequencing (WGS) or re-sequencing. HTS associated with adapted, automatic and fast bioinformatics solutions for sequencing applications promises an accurate and timely identification and characterization of pathogenic agents. Many studies have demonstrated that data obtained from HTS analysis have allowed genome-based diagnosis, which has been consistent with phenotypic observations. These proofs of concept are probably the first steps toward the future of clinical microbiology. From concept to routine use, many parameters need to be considered to promote HTS as a powerful tool to help physicians and clinicians in microbiological investigations. This review highlights the milestones to be completed toward this purpose.
Keywords: high-throughput sequencing; whole genome sequencing; pathogenomics; bioinformatics; analysis pipeline; P4-medicine; genome-based diagnosis high-throughput sequencing; whole genome sequencing; pathogenomics; bioinformatics; analysis pipeline; P4-medicine; genome-based diagnosis
This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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MDPI and ACS Style

Caboche, S.; Audebert, C.; Hot, D. High-Throughput Sequencing, a VersatileWeapon to Support Genome-Based Diagnosis in Infectious Diseases: Applications to Clinical Bacteriology. Pathogens 2014, 3, 258-279.

AMA Style

Caboche S, Audebert C, Hot D. High-Throughput Sequencing, a VersatileWeapon to Support Genome-Based Diagnosis in Infectious Diseases: Applications to Clinical Bacteriology. Pathogens. 2014; 3(2):258-279.

Chicago/Turabian Style

Caboche, Ségolène; Audebert, Christophe; Hot, David. 2014. "High-Throughput Sequencing, a VersatileWeapon to Support Genome-Based Diagnosis in Infectious Diseases: Applications to Clinical Bacteriology." Pathogens 3, no. 2: 258-279.

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