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A new program for high-throughput design of PCR primers

  August, 5 2008 18:24
your information resource in human molecular genetics
Computer-aided design of primers is a central task in human molecular genetics. High-throughput genotyping experiments require in-silico tools able to process batch queries.

A recent paper in BMC Bioinformatics describes a new computational tool for the design of primers for different applications, such as tetra-ARMS or allele-specific PCR. BatchPrimer3 is based in the Primer3 program and allows for the use of a large number of targets as input (in Fasta format). The results can be exported as excel files. This new in silico tool can be very useful for researchers that are planning to carry out analyses of several genomic regions or SNPs.

Author: Olin D Anderson

Western Regional Research Center, Agricultural Research Service, US Department of Agriculture, 800 Buchanan Street, Albany, CA 94710, USA

Email: oandersn@pw.usda.gov


You FM, Huo N, Gu YQ, Luo MC, Ma Y, Hane D, Lazo GR, Dvorak J, Anderson OD. BatchPrimer3: a high throughput web application for PCR and sequencing primer design. BMC Bioinformatics. 2008 May 29;9:253.  

Paper available online.  

The BatchPrimer3 server is available at BatchPrimer3 website.   

Message posted by: Diego Forero

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