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Bioinformatics Vol. 17 no. 9 2001
Pages 838-839
© 2001 Oxford University Press

Applications Note

PIRA PCR designer for restriction analysis of single nucleotide polymorphisms

Xiayi Ke , Andrew Collins and Shu Ye

Division of Human Genetics, University of Southampton, Duthie Building, Southampton General Hospital, Southampton SO16 6YD, UK

Received on March 29, 2001 ; revised on May 31, 2001 ; accepted on June 6, 2001

Summary: Primer-introduced restriction analysis (PIRA-PCR) is widely used to detect Single Nucleotide Polymorphisms (SNPs). To create artificial Restriction Fragment Length Polymorphism (RFLP), a mismatch is usually introduced near the end of the primer that is close to the mutation of interest. We describe in this report a www-based computer program that screens for the suitable mismatches, designs the primers, lists the appropriate restriction enzymes and other related information.

Availability: The computer program, with related descriptions, is available at http://cedar.genetics.soton.ac.uk/public_html/primer2.html.

Contact: xke{at}soton.ac.uk


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