BioNumerics

BioNumerics
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

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

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

References

  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. 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. 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