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Table 4 Topology prediction results on the experimental benchmark set

From: The human transmembrane proteome

  HMMTOPa Membrain MEMSAT-SVM Octopus Philius Phobius Pro Prodiv Scampi-Msa TMHMM TOPCONS CCTOPa CCTOP
Sens/res 0.92 0.88 0.95 0.92 0.92 0.92 0.9 0.83 0.94 0.88 0.93 0.96 0.96
Spec/res 0.92 0.97 0.92 0.97 0.96 0.94 0.96 0.94 0.91 0.97 0.94 0.96 0.97
MCC/res 0.92 0.92 0.94 0.94 0.94 0.93 0.93 0.83 0.92 0.92 0.91 0.96 0.96
Acc Tpg /prot 66 67 70 73 72 68 67 57 64 67 64 82 85
Acc Top /prot 57 0 59 63 68 64 52 44 60 60 59 80 84
  1. Prediction accuracies of the various topology prediction methods on the experimental benchmark set. Sens/res, Spec/res, and MCC/res mean per-residue sensitivity, specificity, and Matthew correlation coefficient, respectively. AccTpg/prot and AccTop/prot mean per/-protein topography and topology accuracies multiplied 100, respectively (apredictions were made without topological constraints)