The value of position-specific scoring matrices for assessment of protein allegenicity

Background: Bioinformatics tools are commonly used for assessing potential protein allergenicity. While these methods have achieved good accuracies for highly conserved sequences, they are less effective when the overall similarity is low. In this study, we assessed the feasibility of using positionspecific scoring matrices as a basis for predicting potential allergenicity in proteins. Results: Two simple methods for predicting potential allergenicity in proteins, based on general and group-specific allergen profiles, are presented. Testing results indicate that the performances of both methods are comparable to the best results of other methods. The group-specific profile approach, with a sensitivity of 84.04% and specificity of 96.52%, gives similar results as those obtained using the general profile approach (sensitivity = 82.45%, specificity = 96.92%). Conclusion: We show that position-specific scoring matrices are highly promising for constructing computational models suitable fo...

• Type: Journal
• Year: 2008
• Where: BMCBI
• Authors: Shen Jean Lim, Joo Chuan Tong, Fook Tim Chew, Martti T. Tammi
• Keywords: Allergenicity Assessment, BMCBI 2008, Potential Allergenicity, Potential Protein Allergenicity