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A method for discovering transmembrane beta-barrel proteins in Gram-negative bacterial proteomes ☆

Paper ID Volume ID Publish Year Pages File Format Full-Text
15357 1406 2008 4 PDF Available
Title
A method for discovering transmembrane beta-barrel proteins in Gram-negative bacterial proteomes ☆
Abstract

Transmembrane β-barrel (TMB) proteins play pivotal roles in many aspects of bacterial functions. This paper presents a k-nearest neighbor (K-NN) method for discriminating TMB and non-TMB proteins. We start with a method that makes predictions based on a distance computed from residue composition and gradually improve the prediction performance by including homologous sequences and searching for a set of residues and di-peptides for calculating the distance. The final method achieves an accuracy of 97.1%, with 0.876 MCC, 86.4% sensitivity and 98.8% specificity. A web server based on the proposed method is available at http://yanbioinformatics.cs.usu.edu:8080/TMBKNNsubmit.

Keywords
Beta-barrel; Prediction; k-Nearest neighbor; Weighted Euclidian distance
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A method for discovering transmembrane beta-barrel proteins in Gram-negative bacterial proteomes ☆
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Publisher
Database: Elsevier - ScienceDirect
Journal: Computational Biology and Chemistry - Volume 32, Issue 4, August 2008, Pages 298–301
Authors
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Subjects
Physical Sciences and Engineering Chemical Engineering Bioengineering
Get Full-Text Now
Don't Miss Today's Special Offer
Price was $35.95
You save - $31
Price after discount Only $4.95
100% Money Back Guarantee
Full-text PDF Download
Online Support
Any Questions? feel free to contact us