BioNumerics

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BioNumerics
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Developer(s) Applied Maths N.V.
Stable release 7.5
Operating system Windows
Platform C++, Python
Type Bioinformatics
License commercial
Website http://www.applied-maths.com

BioNumerics is a suite of bioinformatics software applications developed by the company Applied Maths NV.

History[edit]

BioNumerics was released in 1996 and is still today a platform for the management, storage and (statistical) analysis of all types of biological data. BioNumerics is used by several networks around the globe to share and identify strain information. Pulsenet, a network run by the Centers for Disease Control and Prevention (CDC), uses BioNumerics to distinguish pulsed field gel electrophoresis (PFGE) patterns from different strains of organisms [1][2] Calicinet, an outbreak surveillance network for noroviruses, uses BioNumerics to submit norovirus sequences and basic epidemiologic information to a central database [3]

Features[edit]

BioNumerics consists of 10 software modules, used for the analysis of all major applications in bioinformatics: 1D electrophoresis gels, chromatographic and spectrometric profiles, phenotype characters, microarrays, sequences, etc. .[4] BioNumerics is able to combine information from various genomic and phenotypic sources into one global database and conduct conclusive analyses [5] [6] .

External links[edit]

References[edit]

  1. ^ BioNumerics protocols used by Pulsenet
  2. ^ Hunter SB, Vauterin P, Lambert-Fair MA, Van Duyne MS, Kubota K, Graves L, Wrigley D, Barrett T, Ribot E. (2005). "Establishment of a universal size standard strain for use with the PulseNet standardized pulsed-field gel electrophoresis protocols: converting the national databases to the new size standard.". J. Clin. Microbiol. 43 (3): 1045–1050. doi:10.1128/JCM.43.3.1045-1050.2005. PMC 1081233. PMID 15750058. 
  3. ^ Vega E., Barclay L., Gregoricus N., Williams K., Lee D., Vinjé J. (2011). "Novel Surveillance Network for Norovirus Gastroenteritis Outbreaks, United States". Emerg Infect Dis. 17 (8). doi:10.3201/eid1708.101837. PMC 3381557. PMID 21801614. 
  4. ^ Vauterin L, Vauterin P. Integrated databasing and analysis. In: Molecular Identification, Systematics, and Population Structure of Prokaryotes (ed. Erko Stackebrandt). Springer, 2006. ISBN 978-3-540-23155-4
  5. ^ [1] Schouls LM, Spalburg EC, van Luit M, Huijsdens XW, Pluister GN, et al. 2009 Multiple-Locus Variable Number Tandem Repeat Analysis of Staphylococcus Aureus: Comparison with Pulsed-Field Gel Electrophoresis and spa-Typing" PLoS ONE 4(4) e5082. doi:10.1371/journal.pone.0005082
  6. ^ [2] A. M. Rodas, S. Ferrer and I. Pardo. 2005. Polyphasic study of wine Lactobacillus strains: taxonomic implications, IJSEM January 2005 vol. 55 no. 1 197-207