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Bioinformatics Vol. 16 no. 8 2000
Pages 741-742
© 2000 Oxford University Press

Applications Note

A comparison of signal sequence prediction methods using a test set of signal peptides

Kerstin M.L. Menne 1, Henning Hermjakob 1 and Rolf Apweiler 1

1 EMBL Outstation Hinxton - The European Bioinformatics Institute (EBI), Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK

Received on February 16, 2000 ; revised on March 25, 2000 ; accepted on April 4, 2000

Summary: We describe the creation of a test set containing secretory and non-secretory proteins. Five existing prediction programs for signal sequences and their cleavage sites are compared on the basis of this test set: SPScan, SigCleave, SignalP V1.1, SignalP V2.0.b2-HMM and SignalP V2.0.b2-NN.

Availability: Detailed results, the test set and the script to create the test set are available at ftp://ftp.ebi.ac.uk/pub/contrib/swissprot/testsets/signal/

Contact: hhe{at}ebi.ac.uk


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