TOPCONS: consensus prediction of membrane protein topology
By Andreas Bernsel, Håkan Viklund, Aron Hennerdal, Arne Elofsson. Nucleic Acids Res., 2009
552 citations recorded by the source corpus.
TOPCONS (http://topcons.net/) is a web server for consensus prediction of membrane protein topology. The underlying algorithm combines an arbitrary number of topology predictions into one consensus prediction and quantifies the reliability of the prediction based on the level of agreement between the underlying methods, both on the protein level and on the level of individual TM regions. Benchmarking the method shows that overall performance levels match the best available topology prediction methods, and for sequences with high reliability scores, performance is increased by ∼10 percentage points. The web interface allows for constraining parts of the sequence to a known inside/outside location, and detailed results are displayed both graphically and in text format.
Subfields: Molecular Biology
View Paper: https://www.semanticscholar.org/paper/bce988322c5c4ea2d9e9d47070823f932c8ecdea
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In Molecular Biology
- Christoph Peters
- Nanjiang Shu
- István Reményi
- László Dobson
- Gábor E. Tusnády
- Lukas Käll
- Konstantinos D. Tsirigos
- Arne Elofsson
Citations in the corpus
- Amino acid coevolution reveals three-dimensional structure and functional domains of insect odorant receptors (2015, unknown): “Transmembrane topology was predicted using PolyPhobius 49 and validated by consensus prediction using TOPCONS 50 and MEMSAT-SVM 51 .”
- CCTOP: a Consensus Constrained TOPology prediction web server (2015, methodology): “According to its own benchmarking of TOPCONS, it shows only 1% improvement over single predictors.”
- Topology Prediction of α-Helical Transmembrane Proteins (2016, methodology): “The concept of TOPCONS [99] slightly differs from the previously described prediction methods.”
- The TOPCONS web server for consensus prediction of membrane protein topology and signal peptides (2015, background): “In recent years, consensus algorithms that combine the outputs from different predictors have also been developed (23–26).”