What does it mean to have a conflict in the N-terminal transmembrane domain prediction?
In the membrane organization prediction pipeline, many programs are used to predict the presence of both transmembrane domains and signal peptides. Occasionally, a transmembrane domain and signal peptide are predicted in the same position in a protein. These conflicting predictions at the N-terminal of the protein sequence are resolved using a method based on discriminant functions. If both a transmembrane domain and a signal peptide are predicted to be present, this discrimination results in the prediction of one feature or the other. For more details about the conflict resolution method, see: Yuan Z, Davis MJ, Zhang F, Teasdale RD (2003). Computational differentiation of N-terminal signal peptides and transmembrane helices. Biochem Biophys Res Commun., 312: 1278-1283.
