Signal-cf: a Subsite-coupled and Window-fusing Approach for Predicting Signal Peptides.
From: Gordon Life Science Institute, 13784 Torrey Del Mar Drive, San Diego, CA 92130, USA. kchou@san.rr.com
Biochemical and biophysical research communications
- Publish Date: Jun 2007
- ISSN: 0006-291X
- Volume: 357
- Issue: 3
- Pages: 633-40
- Medium: Print
- Language: English
- Citation (JAMA): Chou Kuo-Chen, Shen Hong-Bin, et al. Signal-cf: a Subsite-coupled and Window-fusing Approach for Predicting Signal Peptides.. Biochem. Biophys. Res. Commun. Jun 2007;357:633-40
Abstract
We have developed an automated method for predicting signal peptide sequences and their cleavage sites in eukaryotic and bacterial protein sequences. It is a 2-layer predictor: the 1st-layer prediction engine is to identify a query protein as secretory or non-secretory; if it is secretory, the process will be automatically continued with the 2nd-layer prediction engine to further identify the cleavage site of its signal peptide. The new predictor is called Signal-CF, where C stands for “coupling” and F for “fusion”, meaning that Signal-CF is formed by incorporating the subsite coupling effects along a protein sequence and by fusing the results derived from many width-different scaled windows through a voting system. Signal-CF is featured by high success prediction rates with short computational time, and hence is particularly useful for the analysis of large-scale datasets. Signal-CF is freely available as a web-server at http://chou.med.harvard.edu/bioinf/Signal-CF/ or http://202.120.37.186/bioinf/Signal-CF/.
Mesh Headings (Keywords): Algorithms, Amino Acid Sequence, Animals, Bacterial Proteins, Computational Biology, Databases, Protein, Eukaryotic Cells, Humans, Membrane Proteins, Models, Biological, Protein Sorting Signals, Proteins, Serine Endopeptidases
Check for Full Text / PubMed Unique Identifier (PMID): 17434148
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