MultiLoc

MultiLoc is a computational method for predicting protein subcellular location. The method was designed for an improved prediction of subcellular locations which can be grouped according to the presence or absence of an N-terminal targeting sequence and signal anchors. The predicted locations are the cytoplasm, chloroplasts (only with plants),ER, extracellular space, lysosomes (only with animals), mitochondria, Golgi apparatus, peroxisomes, plasma membrane, and vacuoles (only with plants and fungi).

Reference: Annette Hoeglund, Pierre Doennes, Torsten Blum, Hans-Werner Adolph, and Oliver Kohlbacher (2006) MultiLoc: prediction of protein subcellular localization using N-terminal targeting sequences, sequence motifs, and amino acid composition. Bioinformatics

SherLoc

Prediction of subcellular localization of proteins by integrating text and protein sequence data.

Reference: Höglund, A, Blum, T, Brady, S, Dönnes, P, Miguel, JS, Rocheford, M, Kohlbacher, O, and Shatkay, H (2006). Significantly improved prediction of subcellular localization by integrating text and protein sequence data. Proceedings of the Pacific Symposium on Biocomputing (PSB 2006)

BLAST

BLAST

Execute a query with the Basic Local Alignment Search Tool. BLAST finds regions of local similarity between sequences. The program compares nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches. BLAST can be used to infer functional and evolutionary relationships between sequences as well as help identify members of gene families.

Reference: Altschul, S.F., Gish, W., Miller, W., Myers, E.W. & Lipman, D.J. (1990) "Basic local alignment search tool." J. Mol. Biol. 215:403-410.

SVMHC

Prediction of MHC class I binding peptides.

Reference: Pierre Dönnes and Arne Elofsson (2002) Prediction of MHC class I binding peptides, using SVMHC. BMC Bioinformatics 3: 25