Description of the CCTOP server
Filtering transmembrane proteinsEight prediction methods have been tested to filter transmembrane proteins, i.e. determining whether a sequence codes a transmembrane protein or a non-transmembrane one. These methods are Memsat, Octopus, Philius, Phobius, Pro-TMHMM, Scampi-single, Scampi-msa and TMHMM. They were executed on preprocessed sequences, i.e. after removing transit and/or signal peptides from the query sequences. As none of these method’s accuracies were as high as desired, a simple consensus approach were utilized to increase the prediction accuracy.
We have prepared a figure by combining the results in a Venn diagram of methods with Matthews correlation coefficients above 0.93, as well as a table showing the results of all triplet combinations of the selected four methods.
Venn diagram of the filtering accuracies
Filtering accuracies of simple majority decision algorithm