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RTPrimerDB


NAR Molecular Biology Database Collection entry number 356
Pattyn, F., Speleman, F., De Paepe, A., Vandesompele, J.
Center for Medical Genetics, Ghent University Hospital, 1K5, De Pintelaan 185, B-9000 Ghent, Belgium

Database Description

The real-time polymerase chain reaction (PCR) methodology has become increasingly popular for nucleic acids detection and/or quantification. As primer/probe design and experimental evaluation is time-consuming, we developed a public database application for the storage and retrieval of validated real-time PCR primer and probe sequence records. The integrity and accuracy of the data are maintained by linking to and querying other reference databases. RTPrimerDB provides free public access through the Web to perform queries and submit user based information. Primer/probe records can be searched for by official gene symbol, nucleotide sequence, type of application, detection chemistry, LocusLink or Single Nucleotide Polymorphism (SNP) identifier, and submitter’s name. Each record is directly linked to LocusLink, dbSNP and/or PubMed to retrieve additional information on the gene/SNP for which the primers/probes are designed. Currently, the database contains primer/probe records for human, mouse, rat, fruit fly and zebrafish, and all current detection chemistries such as intercalating dyes (SYBR Green I), hydrolysis probes (Taqman), adjacent hybridizations probes and molecular beacons. Real-time PCR primer/probe records are available at http://www.realtimeprimerdatabase.ht.st

Recent Developments

As RTPrimerDB has just launched, we strongly encourage researchers to submit their validated primer and probe sequences, to be shared with other users.

Acknowledgements

We are grateful to Guy DetrÉ and Axel Hallez of the Computer Science Laboratory from the Faculty of Engineering of Ghent University for their technical support during the development of this database. Filip Pattyn is an Aspirant of the Fund for Scientific Research of Flanders. This study was supported by FWO-grant G.0028.00, GOA-grant 12051397 and BOF-grants 011B4300 and 011F1200.


Go to the abstract in the NAR 2009 Database Issue.
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