QuantPrime is an intuitive and user-friendly, fully automated tool for primer pair design in small- to large-scale real-time reverse transcription qPCR (also known as realtime qRT-PCR or RT-qPCR) analyses. QuantPrime can be used on the website or on a local computer (contact us for getting a copy); it offers design and specificity checking with highly customizable parameters and is ready to use with most publicly available eukaryotic transcriptomes, including all higher eukaryote model organisms and important plant crops, while benefiting from exon-intron border and splice variant information in available genome annotations. Experimental results with the model plant Arabidopsis thaliana, the crop Hordeum vulgare (barley) and the model green alga Chlamydomonas reinhardtii show success rates of designed primer pairs exceeding 96 %.
For more information on the algorithms used in QuantPrime, please read the paper published in BMC Bioinformatics: QuantPrime - a flexible tool for reliable high-throughput primer design for quantitative PCR.

The QuantPrime service was created by Samuel Arvidsson - initially at the University of Potsdam (supported by EU contract MRTN-CT-2006-035833), and is maintained by Jürgen Gremmels at the Max Planck Institute of Molecular Plant Physiology. The graphical design on the web site was created by Dr. Mirosław Kwaśniewski, who also helped out with the design of the program together with Dr. Diego Mauricio Riaño-Pachón. The work was supervised by Prof. Dr. Bernd Müller-Röber.

We kindly ask QuantPrime users for citation when primers are used in published works. Please cite as follows:
Samuel Arvidsson, Miroslaw Kwasniewski, Diego M. Riano-Pachon and Bernd Mueller-Roeber: QuantPrime - a flexible tool for reliable high-throughput primer design for quantitative PCR. BMC Bioinformatics 2008, 9:465

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For a standalone installation of QuantPrime (recommended for large-scale projects), please contact us.