Decoupling signal recognition from sequence models of protein secretion

Buske, Fabian and Boden, Mikael (2007). Decoupling signal recognition from sequence models of protein secretion. In: Computational Models for Life Sciences - CMLS'07. Computational Models for Life Sciences - CMLS'07, Gold Coast, QLD, Australia, (147-156). 17 - 19 December 2007. doi:10.1063/1.2816618


Author Buske, Fabian
Boden, Mikael
Title of paper Decoupling signal recognition from sequence models of protein secretion
Conference name Computational Models for Life Sciences - CMLS'07
Conference location Gold Coast, QLD, Australia
Conference dates 17 - 19 December 2007
Proceedings title Computational Models for Life Sciences - CMLS'07   Check publisher's open access policy
Journal name AIP Conference Proceedings   Check publisher's open access policy
Place of Publication Melville, NY, U.S.A.
Publisher American Institute of Physics
Publication Year 2007
Sub-type Fully published paper
DOI 10.1063/1.2816618
ISBN 9780735404663
ISSN 0094-243X
1551-7616
Volume 952
Start page 147
End page 156
Total pages 10
Collection year 2008
Language eng
Abstract/Summary This papter presents a translocation probability function which models the protein SRP-recruitment process- the first stage of the secretory pathway. The prediction accuracy of a simple sequence model (based on Conditional Random Field) incorporating this function improves substantially compared to a model based on signal peptide cleavage site features. For the descrimination of secretory and non-secretory pathway proteins a correlation coefficient of 0.97 is achieved-assisting efforts to uncover localization and function for the growing numbers of protein sequence data. The sequence model can be used to predict signal peptide cleavage sites with an accurarcy of 70%.
Subjects E1
280210 Simulation and Modelling
780101 Mathematical sciences
Keyword Protein localization
Secretory pathway
Pattern matching
Conditional Random Field
Q-Index Code E1
Q-Index Status Confirmed Code
Institutional Status UQ

 
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Created: Mon, 28 Apr 2008, 14:48:56 EST by Cody Mudgway on behalf of Institute for Molecular Bioscience