The classical way of linear B-cell epitope prediction is by the use of propensity scale methods. Starting in 1981, hoops and wood, developed the first propensity scales based linear B-cell epitope prediction method that utilizing Levitt hydorophilicity scale. However, a study conducted by Blythe and Flower demonstrated that propensity scale-based methods are only marginally better than random ones. Thereafter, some other improved propensity scale methods were also developed by several author explored the propensity scales methods to improve the predictive performance. Fewer number of tools are available that can predict the sub-type of an epitope listed below.

Name Year Description Pubmed ID
Janin and Wodak 1978 Conformation of Amino Acid Side-chains in Proteins, Exposed surface scale 731698
Levitt Method 1978 Conformational preferences of amino acids in globular proteins, Secondary structure 708713
Ponnuswamy 1980 Hydrophobic packing and spatial arrangement of amino acid residues in globular proteins, Polarity 7397216
Hopp and Woods 1981 Prediction of protein antigenic determinants from amino acid sequences, Hydrophilicity value 6167991
Karplus & Schulz 1985 Prediction of Chain Flexibility in Proteins, Flexibility Click Here
Emini Method 1985 Induction of hepatitis A virus-neutralizing antibody by a virus-specific synthetic peptide, Accessibility 2991600
Parker Method 1986 New hydrophilicity scale derived from high-performance liquid chromatography peptide retention data: correlation of predicted surface residues with antigenicity and X-ray-derived accessible sites, Hydrophilicity 2430611
Kolaskar Method 1990 A semi-empirical method for prediction of antigenic determinants on protein antigens, Antigenic Scale 1702393
Pellequer Method 1991 Predicting location of continuous epitopes in proteins from their primary structures, Turns , Unit-patch of residue triangle and clustering coefficient 1722270
PREDITOP1993 PREDITOP: a program for antigenicity prediction, hydrophilicity, accessibility, flexibility and secondary structure 7509182
PEOPLE 1999 Predictive estimation of protein linear epitopes by using the program PEOPLE, Secondary structure mainly beta-turns, surface accessible, hydrophilic and mobile and/or flexible 10506656
BEPITOPE 2003 Predicting the location of continuous epitopes and patterns in proteins, Protein flexibility, protein accessibility, turns in proteins 12557235
BepiPred 2006 Improved method for predicting linear B-cell epitopes, Hydrophilicity and Secondary structure 16635264
BcePred 2004 Prediction of Continuous B-cell epitopes in antigenic sequences using physico-chemical properties, Hydrophilicity, Accessibility, Turns, Antigenic Scale , flexibility, polarity and exposed surface Click Here
AAPPred 2009 Prediction of linear B-cell epitopes using amino acid pair antigenicity scale, Hydrophilicity, Flexibility, Surface Location, Frequency in an epitope, Β-Turns 19334539