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Online Journal of Bioinformatics
Volume 6 : 8-21, 2005.
A novel method to predict protein subcellular localizations
Huang J, Shi H
School of Computer Science and Mathematics and Statistics, Wuhan University and School of Science, Huazhong Agricultural University, Hubei Province, P.R. China.
Huang J, Shi H, A novel method to predict protein subcellular localizations, Onl J Bioinform., 6:8-21, 2004. Amino acid similarity and structure were used in a model to predict subcellular localizations for prokaryotic and eukaryotic proteins. Tested with Reinhart and Hubbard’s dataset, prediction accuracies reached 100% using the self-consistency test, 92% for prokaryotic sequences and 79.2% for eukaryotic protein sequences with the jackknife test. The results suggest that amino acid structure may be a useful predictor of protein subcellular localization.
KEY WORDS: Support vector machine, subcellular location, amino acid similarity.