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• :Zelluläre Virusabwehr
• :Software Download

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VMir

Software for the prediction of potential pre-miRNA hairpin structures. The software is provided as a zipped archive which contains two programs:  VMir Analyzer performs the actual analysis and VMir Viewer visualizes the results. Further information and installation instructions are provided in the README.txt. 

Click here to download (.zip archive)

Release 1.5: VMir Analyzer v2.3 / VMir Viewer v1.6 (as described in (1)):

• Added a tool that allows the user to adjust the stringency of the scoring algorithm. 

Release 1.4: VMir Analyzer v2.3 / VMir Viewer v1.5: 

• Fixed a bug in VMir Analyzer which could stall the program when access to temporary files was delayed

Release 1.3: VMir Analyzer v2.2 / VMir Viewer v1.5 (as described in (2)): 

• Decreased the default size of the hairpin segment which VMir Analyzer considers to calculate scores from 120 to 100 to prevent over-penalization of large bulges at the base of hairpin structures

• Added tools for the design and analysis of oligonucleotide microarrays to confirm miRNA predictions to VMir Viewer

Release 1.0: VMir Analyzer v2.1 / VMir Viewer v1.2 (Original Version as described in (3,6))

References:  

1. Grundhoff, A. (2011). Computational prediction of viral miRNAs. Methods Mol Biol.;721:143-52.

2. Sullivan C.S., Grundhoff A. (2007). Identification of viral miRNAs. Methods Enzymol; 427:3-23.

3. Grundhoff A., Sullivan C. S., Ganem D. (2006). A combined computational and microarray-based approach identifies novel microRNAs encoded by human gamma-herpesviruses. RNA 12 (5):733-50. Epub 2006 Mar 15.

4. Walz N, Christalla T, Tessmer U, Grundhoff A. (2010). A global analysis of evolutionary conservation among known and predicted gammaherpesvirus microRNAs. J Virol. 84(2):716-28. Epub 2009 Nov 4.

5. Grundhoff A, Sullivan CS. (2011). Virus-encoded microRNAs. Virology. 411(2):325-43. Epub 2011 Jan 31.

6. Sullivan C.S., Grundhoff A., Tevethia S., Pipas J.M., Ganem D. (2005). SV40-encoded microRNAs regulate viral gene expression and reduce susceptibility to cytotoxic T cells. Nature. 2005 Jun 2;435(7042):682-6.