REFERENCE TO EVALLER™ / PUBLICATIONS BY THE TEAM
Authors who wish to publish reports, wherein data or conclusions are derived from bioinformatics testing for allergenic potential in EVALLER™, are encouraged to quote at least the below specified article appearing in Nucleic Acids Res Web Server Issue of 2007, preferably also the original paper on DFLAP (in Nucleic Acids Res of 2006):
- Martinéz-Barrio, A., Soeria-Atmadja, D., Nistér, A., Gustafsson, M.G., Hammerling, U. and Bongcam-Rudloff, E. (2007) EVALLER: a web server for in silico assessment of potential protein allergenicity. Nucleic Acids Res 35 (Web Server issue): W694-W700.
- Soeria-Atmadja, D., Lundell, T., Gustafsson, M.G. and Hammerling, U. (2006) Computational detection of allergenic proteins attains a new level of accuracy with in silico variable-length peptide extraction and machine learning. Nucleic Acids Res 34 (13): 3779-3793.
Scientific reports produced by the team include the following published articles:
- Zorzet, A., Gustafsson, M., and Hammerling, U. (2002) Prediction of food protein allergenicity: a bioinformatic learning systems approach. In Silico Biol 2: 525-534.
- Soeria-Atmadja, D., Zorzet, A., Gustafsson, M. G., and Hammerling, U. (2004) Statistical evaluation of local alignment features predicting allergenicity using supervised classification algorithms. Int Arch Allergy Immunol 133 (2): 101-112.
- Soeria-Atmadja, D., Wallman, M., Bjorklund, A. K., Isaksson, A., Hammerling, U., and Gustafsson, M. G. (2005) External cross-validation for unbiased evaluation of protein family detectors: Application to allergens. Proteins 61 (4): 918-925.
- Bjorklund, A. K., Soeria-Atmadja, D., Zorzet, A., Hammerling, U., and Gustafsson, M. G. (2005) Supervised identification of allergen-representative peptides for in silico detection of potentially allergenic proteins. Bioinformatics 21 (1): 39-50.
- Soeria-Atmadja, D., Lundell, T., Gustafsson, M. G., and Hammerling, U. (2006) Computational detection of allergenic proteins attains a new level of accuracy with in silico variable-length peptide extraction and machine learning. Nucleic Acids Res 34 (13): 3779-3793.
- Martinéz Barrio, A., Soeria-Atmadja, D., Nistér, A., Gustafsson, M. G., Hammerling, U., and Bongcam-Rudloff, E. (2007) EVALLER: A web-server for in silico assessment of potential protein allergenicity. Nucl Acids Res 35 (Web Server issue): W694-W700.
- Soeria-Atmadja, D., Önell, A., Kober, A., Matsson, P., Gustafsson, M.G. and Hammerling, U. (2007) Multivariate statistical analysis of large-scale IgE-antibody measurements reveals allergen extract relationships in sensitized individuals. J Allergy Clin Immunol 120 (6): 1433-1440.
Special report on EVALLER™ 2.0
- Bongcam-Rudloff, E., Edsgärd, D., Martinez Barrio, A., Soeria-Atmadja, D., Gustafsson, M.G. and Hammerling, U. (2007) A guide to EVALLER™ (2.0) web server: A new tool for in silico testing of protein allergenicity. EMBnet.news 13 (4): 32-37.