Open Science

Open Science

We firmly believe in the Open Science concept and have developed a few tools to that end

PRGdb (Plant resistance gene database)

In their constant struggle for survival, plants have developed a wide range of defence mechanisms to protect themselves against the attack of pathogens. While some of these resistance strategies rely on simple physical or chemical barriers, more sophisticated biochemical mechanisms based on gene-for-gene interactions between plants and their infectious agents have been reported.

The plant resistance gene database (PRGdb) is a web-accessible open source, that represents the first bioinformatic resource providing a comprehensive overview of resistance genes (R-genes) in plants.

PRGdb was born in 2006 at the University of Naples Federico II under the scientific coordination of Prof. Maria Raffaella Ercolano. The purpose of our work is to create a worldwide community working on plant resistance genes with a constant update on all aspects of this research field and to encourage scientists to be actors in the discussion and exchange of data.

Sanseverino, W., Hermoso, A., D’Alessandro, R., Vlasova, A., Andolfo, G., Frusciante, L., Lowy, E., Roma, G., Ercolano, MR. PRGdb 2.0: towards a community-based database model for the analysis of R-genes in plants. Nucleic Acids Res.: 2012; PubMed: 23161682

GreeNC (Plant long non-coding database)

Long non-coding RNAs (lncRNAs) are functional non-translated molecules longer than 200 nucleotides with diverse roles, such as chromatin modifications, transcriptional regulation and conformational changes in proteins. The Green Non-Coding Database (GreeNC) is a repository of lncRNAs annotated in 37 plant species and six algae.

By using the same pipeline to annotate lncRNAs and organizing them in a central database, we aim to provide a tool for the scientific community that can boost research on this class of transcripts. The GreeNC database provides information about sequence, genomic coordinates, coding potential and folding energy for all the identified lncRNAs.

Paytuvi, A., Hermoso, A., Anzar Martinez de Lagran, I., Sanseverino, W., Aiese Cigliano, R. GreeNC: a wiki-based database of plant lncRNAs. Nucleic Acids Research 2015. doi:10.1093/nar/gkv1215

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