A survey of tools for analysing DNA fingerprints

  1. Heras, J. 1
  2. Domínguez, C. 1
  3. Mata, E. 1
  4. Pascual, V. 1
  5. Lozano, C. 1
  6. Torres, C. 1
  7. Zarazaga, M. 1
  1. 1 Universidad de La Rioja
    info

    Universidad de La Rioja

    Logroño, España

    ROR https://ror.org/0553yr311

Zeitschrift:
Briefings in Bioinformatics

ISSN: 1467-5463

Datum der Publikation: 2016

Ausgabe: 17

Nummer: 6

Seiten: 903-911

Art: Artikel

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DOI: 10.1093/BIB/BBV016 PMID: 25825453 SCOPUS: 2-s2.0-85038129383 WoS: WOS:000392716500001 GOOGLE SCHOLAR lock_openOpen Access editor

Andere Publikationen in: Briefings in Bioinformatics

Institutionelles Repository: lock_openOpen Access Postprint lock_openOpen Access Editor

Ziele für nachhaltige Entwicklung

Projekte im Zusammenhang

Formalización de las matemáticas: aplicaciones en cálculo simbólico y álgebra computacional. Formalization of mathematics. applications to symbolic computation and computer algebra.

2015/00074/001

Zusammenfassung

DNA fingerprinting is a genetic typing technique that allows the analysis of the genomic relatedness between samples, and the comparison of DNA patterns. This technique has multiple applications in different fields (medical diagnosis, forensic science, parentage testing, food industry, agriculture and many others). An important task in molecular epidemiology of infectious diseases is the analysis and comparison of pulsed-field gel electrophoresis (PFGE) patterns. This is applied to determine the clonal diversity of bacteria in the follow-up of outbreaks or for tracking specific clones of special relevance. The resulting images produced by DNA fingerprinting are sometimes difficult to interpret, and multiple tools have been developed to simplify this task. In this article, we present a survey of tools for analysing DNA fingerprints. In particular, we compare 33 tools using a set of predefined criteria. The comparison was carried out by hands-on experiences-whenever possible-and inspecting the documentation of the tools. As no system is preferred in all the possible scenarios, we have created a spreadsheet that can be customized by researchers to determine the best system for their needs.