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Publication for TMBETA-GENOME
Prediction of structural features and application to outer membrane protein identification
[…] e available at http://genomics.fzu.edu.cn/OMP/attachments/. Six computational algorithms (i.e., SOSUI, amino acid, dipeptide, motif, SVM-based methods and a method called “New approach”) were used in TMBETA-GENOME (http://tmbeta-genome.cbrc.jp/annotation/) to annotate OMPs. Here, we assumed a protein is predicted to be OMP with high confidence if at least five computational methods of TMBETA-GENOM […]
ProBLM Web Server: Protein and Membrane Placement and Orientation Package
[…] used to incorporate a protein into the membrane.In parallel, databases of membrane proteins and their properties were developed such as the Orientations of Proteins in Membranes (OPM) database  and TMBETA-GENOME database . These developments were used to create the PPM webserver which can be used for calculating spatial positions in membranes of membrane proteins . Furthermore, once the prot […]
Computational and experimental approaches to chart the Escherichia coli cell envelope associated proteome and interactome
[…] TMB-Hunt results are significantly enhanced using homology information (), this option restricts the submission of single sequences at a time. TMBETADISC-RBF () and the companion precomputed database TMBETA-GENOME (, ) are other TOMP discriminators, while TMBETA-NET () couples a discriminator with a predictor of β-barrel's topology showing better performance than TMBETADISC-RBF (), but currently s […]
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