Giuseppe
Emeritus
[Source: Eurosurveillance, full text: (LINK). Abstract, edited.]
J A Carri?o (
)<SUP>1</SUP>, A J Sabat<SUP>2</SUP>, A W Friedrich<SUP>2</SUP>, M Ramirez<SUP>1</SUP>, on behalf of the ESCMID Study Group for Epidemiological Markers (ESGEM)<SUP>3</SUP>
Citation style for this article: Carri?o JA, Sabat AJ, Friedrich AW, Ramirez M, on behalf of the ESCMID Study Group for Epidemiological Markers (ESGEM). Bioinformatics in bacterial molecular epidemiology and public health: databases, tools and the next-generation sequencing revolution. Euro Surveill. 2013;18(4)
ii=20382. Available online: http://www.eurosurveillance.org/ViewArticle.aspx?ArticleId=20382
Date of submission: 29 June 2012 <HR>Advances in typing methodologies have been the driving force in the field of molecular epidemiology of pathogens. The development of molecular methodologies, and more recently of DNA sequencing methods to complement and improve phenotypic identification methods, was accompanied by the generation of large amounts of data and the need to develop ways of storing and analysing them. Simultaneously, advances in computing allowed the development of specialised algorithms for image analysis, data sharing and integration, and for mining the ever larger amounts of accumulated data. In this review, we will discuss how bioinformatics accompanied the changes in bacterial molecular epidemiology. We will discuss the benefits for public health of specialised online typing databases and algorithms allowing for real-time data analysis and visualisation. The impact of the new and disruptive next-generation sequencing methodologies will be evaluated, and we will look ahead into these novel challenges.
- ------
Eurosurveillance, Volume 18, Issue 4, 24 January 2013
Review articles
Bioinformatics in bacterial molecular epidemiology and public health: databases, tools and the next-generation sequencing revolution
Review articles
Bioinformatics in bacterial molecular epidemiology and public health: databases, tools and the next-generation sequencing revolution
J A Carri?o (
- Instituto de Microbiologia, Instituto de Medicina Molecular, Faculdade de Medicina, Universidade de Lisboa, Lisbon, Portugal
- Department of Medical Microbiology, University of Groningen, University Medical Center Groningen, Groningen, The Netherlands
- European Society for Clinical Microbiology and Infectious Diseases, Basel, Switzerland
Citation style for this article: Carri?o JA, Sabat AJ, Friedrich AW, Ramirez M, on behalf of the ESCMID Study Group for Epidemiological Markers (ESGEM). Bioinformatics in bacterial molecular epidemiology and public health: databases, tools and the next-generation sequencing revolution. Euro Surveill. 2013;18(4)
ii=20382. Available online: http://www.eurosurveillance.org/ViewArticle.aspx?ArticleId=20382 Date of submission: 29 June 2012 <HR>Advances in typing methodologies have been the driving force in the field of molecular epidemiology of pathogens. The development of molecular methodologies, and more recently of DNA sequencing methods to complement and improve phenotypic identification methods, was accompanied by the generation of large amounts of data and the need to develop ways of storing and analysing them. Simultaneously, advances in computing allowed the development of specialised algorithms for image analysis, data sharing and integration, and for mining the ever larger amounts of accumulated data. In this review, we will discuss how bioinformatics accompanied the changes in bacterial molecular epidemiology. We will discuss the benefits for public health of specialised online typing databases and algorithms allowing for real-time data analysis and visualisation. The impact of the new and disruptive next-generation sequencing methodologies will be evaluated, and we will look ahead into these novel challenges.