CircPrime : a web‑based platform for design of specific circular RNA primers
Peer reviewed, Journal article
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Original versionSharko, F., Rbbani, G., Siriyappagouder, P., Raeymaekers, J. A. M., Galindo-Villegas, J. Nedoluzhko, A., & Fernandes, J. M. O. (2023). CircPrime: a web‑based platform for design of specific circular RNA primers. BMC Bioinformatics, 24, Article 205. doi: 10.1186/s12859-023-05331-y
Background: Circular RNAs (circRNAs) are covalently closed-loop RNAs with critical regulatory roles in cells. Tens of thousands of circRNAs have been unveiled due to the recent advances in high throughput RNA sequencing technologies and bioinformatic tools development. At the same time, polymerase chain reaction (PCR) cross-validation for circRNAs predicted by bioinformatic tools remains an essential part of any circRNA study before publication. Results: Here, we present the CircPrime web-based platform, providing a user-friendly solution for DNA primer design and thermocycling conditions for circRNA identification with routine PCR methods. Conclusions: User-friendly CircPrime web platform (http:// circp rime. elgene. net/) works with outputs of the most popular bioinformatic predictors of circRNAs to design specific circular RNA primers. CircPrime works with circRNA coordinates and any reference genome from the National Center for Biotechnology Information database).