FRED - A framework for T-cell epitope detection

Bioinformatics

Volumn 25, Issue 20, 2009, Pages 2758-2759

  Feldhahn, Magdalena ^a   Dönnes, Pierre ^a,b   Thiel, Philipp ^a   Kohlbacher, Oliver ^a  

^a UNIVERSITY OF TÜBINGEN   (Germany)

^b ASTRAZENECA R AND D   (Sweden)

Author keywords

[No Author keywords available]

Indexed keywords

EPITOPE; T LYMPHOCYTE ANTIGEN;

ANALYTIC METHOD; ANTIGEN BINDING; ANTIGEN DETECTION; ANTIGEN PRESENTATION; ARTICLE; BIOINFORMATICS; COMPUTER PROGRAM; INFORMATION RETRIEVAL; MAJOR HISTOCOMPATIBILITY COMPLEX; PREDICTION; PRIORITY JOURNAL;

BINDING SITES; COMPUTATIONAL BIOLOGY; DATABASES, PROTEIN; EPITOPES, T-LYMPHOCYTE; SOFTWARE;

EID: 70349980882     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btp409     Document Type: Article

References (14)

1. Buus,S. et al. (2003) Sensitive quantitative predictions of peptide-MHC binding by a 'Query by Committee' artificial neural network approach. Tissue Antigens, 62, 378-384.
2. DeLuca,D.S. and Blasczyk,R. (2007) The immunoinformatics of cancer immunotherapy. Tissue Antigens, 70, 265-271.
3. Dönnes,P. and Kohlbacher,O. (2005) Integrated modeling of the major events in the MHC class I antigen processing pathway. Protein Sci. 14, 2132-2140.
4. Dönnes,P. and Kohlbacher,O. (2006) SVMHC: A server for prediction of MHC-binding peptides. Nucleic Acids Res., 34, W194-W197.
5. Doytchinova,I. et al. (2004) Transporter associated with antigen processing preselection of peptides binding to the MHC: A bioinformatic evaluation. J. Immunol., 173, 6813-6819.
6. Feldhahn,M. et al. (2008) Epitoolkit-a web server for computational immunomics. Nucleic Acids Res., 36, W519-W522.
7. Halling-Brown,M. et al. (2009) Computational grid framework for immunological applications. Philos. Trans. R. Soc. A, 367, 2705-2716.
8. Nielsen,M. et al. (2007) NetMHCpan, a method for quantitative predictions of peptide binding to any HLA-A and -B locus protein of known sequence. PLoS ONE, 2, e796.
9. Nielsen,M. et al. (2008) Quantitative predictions of peptide binding to any HLA-DR molecule of known sequence: NetMHCIIpan. PLoS Comput. Biol., 4, e1000107.
10. Parker,K.C. et al. (1994) Scheme for ranking potential HLA-A2 binding peptides based on independent binding of individual peptide side-chains. J. Immunol., 152, 163-175.
11. Rammensee,H. et al. (1999) SYFPEITHI: Database for MHC ligands and peptide motifs. Immunogenetics, 50, 213-219.
12. Sturniolo,T. et al. (1999) Generation of tissue-specific and promiscuous HLA ligand databases using DNA microarrays and virtual HLA class II matrices. Nat. Biotechnol., 17, 555-561.
13. Toussaint,N.C. and Kohlbacher,O. (2009) OptiTope - a web server for the selection of an optimal set of peptides for epitope-based vaccines. Nucleic Acids Res., 37, W617-W622.
14. Toussaint,N.C. et al. (2008) A mathematical framework for the selection of an optimal set of peptides for epitope-based vaccines. PLoS Comput. Biol., 4, e1000246.