PredGPI: a GPI-anchor predictor

Background: Several eukaryotic proteins associated to the extracellular leaflet of the plasma membrane carry a Glycosylphosphatidylinositol (GPI) anchor, which is linked to the C-terminal residue after a proteolytic cleavage occurring at the so called -site. Computational methods were developed to discriminate proteins that undergo this post-translational modification starting from their aminoacidic sequences. However more accurate methods are needed for a reliable annotation of whole proteomes. Results: Here we present PredGPI, a prediction method that, by coupling a Hidden Markov Model (HMM) and a Support Vector Machine (SVM), is able to efficiently predict both the presence of the GPI-anchor and the position of the -site. PredGPI is trained on a non-redundant dataset of experimentally characterized GPI-anchored proteins whose annotation was carefully checked in the literature. Conclusion: PredGPI outperforms all the other previously described methods and is able to correctly replic...

• Type: Journal
• Year: 2008
• Where: BMCBI
• Authors: Andrea Pierleoni, Pier Luigi Martelli, Rita Casadio
• Keywords: Accurate Method, BMCBI 2008, Extracellular Leaflet, Proteins