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Primer-BLAST: A tool to design target-specific primers for polymerase chain reaction

Jian Ye1*, George Coulouris1, Irena Zaretskaya1, Ioana Cutcutache2, Steve Rozen2 and Thomas L Madden1

Author Affiliations

1 National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Building 45, 8600 Rockville Pike, Bethesda, MD, 20894, USA

2 Neuroscience and Behavioral Disorders Program, Duke-NUS Graduate Medical School, 8 College Road, Singapore, 169857, Singapore

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BMC Bioinformatics 2012, 13:134  doi:10.1186/1471-2105-13-134

Published: 18 June 2012

Additional files

Additional file 1:

PrimerPairsFromQuantPrime.doc Primer pairs generated from QuantPrime. Fifty-two randomly selected human template sequences from NCBI Refseq mRNA database are used to generate target-specific primers by QuantPrime. The “SYBR Green real-time qPCR (no splice variant hits)” option was selected with the organism set to human and the database set to “RefSeq 04/30/09 (reference assembly)(genome+) (splice variants)”. Default values were used for all other options. The underlined pairs are used as example cases in Figure 5.

Format: DOC Size: 79KB Download file

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Additional file 2:

PrimerPairsFromPRIMEGENS.doc Primer pairs generated from PRIMEGENS. Twenty-four randomly selected template sequences from NCBI Refseq mRNA database are used to generate target-specific primers by PRIMEGENS (Arabidopsis thaliana sequences were chosen since PRIMEGENS does not support transcript database for human). The database “Arabidopsis TAIR9 cDNA” was selected. Default values were used for all other options. The underlined pairs are used as example cases in Figure 5.

Format: DOC Size: 157KB Download file

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