WoLF PSORT: protein localization predictor

WoLF PSORT is an extension of the PSORT II program for protein subcellular location prediction. WoLF PSORT converts protein amino acid sequences into numerical localization features; based on sorting signals, amino acid composition and functional motifs such as DNA-binding motifs. After conversion, a simple k-nearest neighbor classifier is used for prediction. Using html, the evidence for each prediction is shown in two ways: (i) a list of proteins of known localization with the most similar localization features to the query, and (ii) tables with detailed information about individual localization features. For convenience, sequence alignments of the query to similar proteins and links to UniProt and Gene Ontology are provided. Taken together, this information allows a user to understand the evidence (or lack thereof) behind the predictions made for particular proteins. WoLF PSORT is available at wolfpsort.org.

[1]  Josefine Sprenger,et al.  Evaluation and comparison of mammalian subcellular localization prediction methods , 2006, BMC Bioinformatics.

[2]  Xiaohui S. Xie,et al.  A Mammalian Organelle Map by Protein Correlation Profiling , 2006, Cell.

[3]  B. Rost,et al.  Mimicking cellular sorting improves prediction of subcellular localization. , 2005, Journal of molecular biology.

[4]  Graydon B. Gonsalvez,et al.  RNA localization in yeast: moving towards a mechanism , 2005, Biology of the cell.

[5]  Cathy H. Wu,et al.  The Universal Protein Resource (UniProt) , 2004, Nucleic Acids Res..

[6]  Ronald J. Moore,et al.  Integrative Analysis of the Mitochondrial Proteome in Yeast , 2004, PLoS biology.

[7]  Limsoon Wong,et al.  The practical Bioinformatician , 2004 .

[8]  E. O’Shea,et al.  Global analysis of protein localization in budding yeast , 2003, Nature.

[9]  Olof Emanuelsson,et al.  Predicting Protein Subcellular Localisation From Amino Acid Sequence Information , 2002, Briefings Bioinform..

[10]  M. Gerstein,et al.  Subcellular localization of the yeast proteome. , 2002, Genes & development.

[11]  Satoru Miyano,et al.  Extensive feature detection of N-terminal protein sorting signals , 2002, Bioinform..

[12]  M. Ashburner,et al.  Gene Ontology: tool for the unification of biology , 2000, Nature Genetics.

[13]  Paul Horton,et al.  Better Prediction of Protein Cellular Localization Sites with the it k Nearest Neighbors Classifier , 1997, ISMB.

[14]  M. Kanehisa,et al.  A knowledge base for predicting protein localization sites in eukaryotic cells , 1992, Genomics.

[15]  J. Davies,et al.  Molecular Biology of the Cell , 1983, Bristol Medico-Chirurgical Journal.

[16]  K. Nakai,et al.  PSORT: a program for detecting sorting signals in proteins and predicting their subcellular localization. , 1999, Trends in biochemical sciences.