YLoc—an interpretable web server for predicting subcellular localization
Open Access
- 27 May 2010
- journal article
- research article
- Published by Oxford University Press (OUP) in Nucleic Acids Research
- Vol. 38 (suppl_2), W497-W502
- https://doi.org/10.1093/nar/gkq477
Abstract
Predicting subcellular localization has become a valuable alternative to time-consuming experimental methods. Major drawbacks of many of these predictors is their lack of interpretability and the fact that they do not provide an estimate of the confidence of an individual prediction. We present YLoc, an interpretable web server for predicting subcellular localization. YLoc uses natural language to explain why a prediction was made and which biological property of the protein was mainly responsible for it. In addition, YLoc estimates the reliability of its own predictions. YLoc can, thus, assist in understanding protein localization and in location engineering of proteins. The YLoc web server is available online at www.multiloc.org/YLoc.Keywords
This publication has 28 references indexed in Scilit:
- Going from where to why—interpretable prediction of protein subcellular localizationBioinformatics, 2010
- Protein subcellular localization prediction of eukaryotes using a knowledge-based approachBMC Bioinformatics, 2009
- MultiLoc2: integrating phylogeny and Gene Ontology terms improves subcellular protein localization predictionBMC Bioinformatics, 2009
- ESLpred2: improved method for predicting subcellular localization of eukaryotic proteinsBMC Bioinformatics, 2008
- DBMLoc: a Database of proteins with multiple subcellular localizationsBMC Bioinformatics, 2008
- ProLoc-GO: Utilizing informative Gene Ontology terms for sequence-based prediction of protein subcellular localizationBMC Bioinformatics, 2008
- VirulentPred: a SVM based prediction method for virulent proteins in bacterial pathogensBMC Bioinformatics, 2008
- WoLF PSORT: protein localization predictorNucleic Acids Research, 2007
- Locating proteins in the cell using TargetP, SignalP and related toolsNature Protocols, 2007
- Refining Protein Subcellular LocalizationPLoS Computational Biology, 2005