-
1
-
-
80355136436
-
NNAlign: A web-based prediction method allowing non-expert end-user discovery of sequence motifs in quantitative peptide data
-
Andreatta, M. et al. (2011) NNAlign: a web-based prediction method allowing non-expert end-user discovery of sequence motifs in quantitative peptide data. PLoS One, 6, e26781.
-
(2011)
PLoS One
, vol.6
, pp. e26781
-
-
Andreatta, M.1
-
2
-
-
84924326106
-
Mass spectrometry of human leukocyte antigen class i peptidomes reveals strong effects of protein abundance and turnover on antigen presentation
-
Bassani-Sternberg, M. et al. (2015)Mass spectrometry of human leukocyte antigen class I peptidomes reveals strong effects of protein abundance and turnover on antigen presentation. Mol. Cell. Proteomics MCP, 14, 658-673.
-
(2015)
Mol. Cell. Proteomics MCP
, vol.14
, pp. 658-673
-
-
Bassani-Sternberg, M.1
-
3
-
-
30544452130
-
Have we cut ourselves too short in mapping CTL epitopes?
-
Burrows, S. R. et al. (2006) Have we cut ourselves too short in mapping CTL epitopes?. Trends Immunol., 27, 11-16.
-
(2006)
Trends Immunol.
, vol.27
, pp. 11-16
-
-
Burrows, S.R.1
-
4
-
-
0028150789
-
Three-dimensional structure of a peptide extending from one end of a class i MHC binding site
-
Collins, E. J. et al. (1994) Three-dimensional structure of a peptide extending from one end of a class I MHC binding site. Nature, 371, 626-629.
-
(1994)
Nature
, vol.371
, pp. 626-629
-
-
Collins, E.J.1
-
5
-
-
0026590272
-
Preferred size of peptides that bind to H-2 Kb is sequence dependent
-
Deres, K. et al. (1992) Preferred size of peptides that bind to H-2 Kb is sequence dependent. Eur. J. Immunol., 22, 1603-1608.
-
(1992)
Eur. J. Immunol.
, vol.22
, pp. 1603-1608
-
-
Deres, K.1
-
6
-
-
84907931326
-
Identification and characterisation of peptide binding motifs of six autoimmune disease-associated human leukocyte antigenclass i molecules including HLA-B39:06
-
Eichmann, M. et al. (2014) Identification and characterisation of peptide binding motifs of six autoimmune disease-associated human leukocyte antigenclass I molecules including HLA-B39:06. Tissue Antigens, 84, 378-388.
-
(2014)
Tissue Antigens
, vol.84
, pp. 378-388
-
-
Eichmann, M.1
-
7
-
-
71749098088
-
ELM: The status of the 2010 eukaryotic linear motif resource
-
Gould, C. M. et al. (2010) ELM: the status of the 2010 eukaryotic linear motif resource. Nucleic Acids Res., 38, D167-D180.
-
(2010)
Nucleic Acids Res.
, vol.38
, pp. D167-D180
-
-
Gould, C.M.1
-
8
-
-
0026458378
-
Amino acid substitution matrices from protein blocks
-
Henikoff, S. and Henikoff, J. G. (1992) Amino acid substitution matrices from protein blocks. Proc. Natl Acad. Sci. U. S. A., 89, 10915-10919.
-
(1992)
Proc. Natl Acad. Sci. U. S. A.
, vol.89
, pp. 10915-10919
-
-
Henikoff, S.1
Henikoff, J.G.2
-
9
-
-
59449094834
-
NetMHCpan, a method for MHC class i binding prediction beyond humans
-
Hoof, I. et al. (2009) NetMHCpan, a method for MHC class I binding prediction beyond humans. Immunogenetics, 61, 1-13.
-
(2009)
Immunogenetics
, vol.61
, pp. 1-13
-
-
Hoof, I.1
-
10
-
-
84889637320
-
NetMHCstab-predicting stability of peptide-MHC-I complexes; Impacts for cytotoxic T lymphocyte epitope discovery
-
Jørgensen, K. W. et al. (2014) NetMHCstab-predicting stability of peptide-MHC-I complexes; impacts for cytotoxic T lymphocyte epitope discovery. Immunology, 141, 18-26.
-
(2014)
Immunology
, vol.141
, pp. 18-26
-
-
Jørgensen, K.W.1
-
11
-
-
71949096416
-
Derivation of an amino acid similarity matrix for peptide: MHC binding and its application as a Bayesian prior
-
Kim, Y. et al. (2009) Derivation of an amino acid similarity matrix for peptide: MHC binding and its application as a Bayesian prior. BMC Bioinformatics, 10, 394.
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 394
-
-
Kim, Y.1
-
12
-
-
84879540457
-
Scrutinizing MHC-I binding peptides and their limits of variation
-
Koch, C. P. et al. (2013) Scrutinizing MHC-I binding peptides and their limits of variation. PLoS Comput. Biol., 9, e1003088.
-
(2013)
PLoS Comput. Biol.
, vol.9
, pp. e1003088
-
-
Koch, C.P.1
-
13
-
-
84920998525
-
HLA ligandome analysis identifies the underlying specificities of spontaneous antileukemia immune responses in chronic lymphocytic leukemia (CLL)
-
Kowalewski, D. J. et al. (2015) HLA ligandome analysis identifies the underlying specificities of spontaneous antileukemia immune responses in chronic lymphocytic leukemia (CLL). Proc. Natl Acad. Sci. U. S. A., 112, E166-E175.
-
(2015)
Proc. Natl Acad. Sci. U. S. A.
, vol.112
, pp. E166-E175
-
-
Kowalewski, D.J.1
-
14
-
-
84947751854
-
High-order neural networks and kernel methods for peptide-MHC binding prediction
-
Kuksa, P. P. et al. (2015) High-order neural networks and kernel methods for peptide-MHC binding prediction. Bioinformatics, 31, 3600-3607.
-
(2015)
Bioinformatics
, vol.31
, pp. 3600-3607
-
-
Kuksa, P.P.1
-
15
-
-
44349146151
-
Accurate approximation method for prediction of class i MHC affinities for peptides of length 8 10 and 11 using prediction tools trained on 9mers
-
Lundegaard, C. et al. (2008) Accurate approximation method for prediction of class I MHC affinities for peptides of length 8, 10 and 11 using prediction tools trained on 9mers. Bioinformatics, 24, 1397-1398.
-
(2008)
Bioinformatics
, vol.24
, pp. 1397-1398
-
-
Lundegaard, C.1
-
16
-
-
33746132748
-
A consensus epitope prediction approach identifies the breadth of murine T(CD8)-cell responses to vaccinia virus
-
Moutaftsi, M. et al. (2006) A consensus epitope prediction approach identifies the breadth of murine T(CD8)-cell responses to vaccinia virus. Nat. Biotechnol., 24, 817-819.
-
(2006)
Nat. Biotechnol.
, vol.24
, pp. 817-819
-
-
Moutaftsi, M.1
-
17
-
-
70449359806
-
NN-align. An artificial neural network-based alignment algorithm for MHC class II peptide binding prediction
-
Nielsen, M. and Lund, O. (2009) NN-align. An artificial neural network-based alignment algorithm for MHC class II peptide binding prediction. BMC Bioinformatics, 10, 296.
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 296
-
-
Nielsen, M.1
Lund, O.2
-
18
-
-
0037407113
-
Reliable prediction of T-cell epitopes using neural networks with novel sequence representations
-
Nielsen, M. et al. (2003) Reliable prediction of T-cell epitopes using neural networks with novel sequence representations. Protein Sci. Publ. Protein Soc., 12, 1007-1017.
-
(2003)
Protein Sci. Publ. Protein Soc.
, vol.12
, pp. 1007-1017
-
-
Nielsen, M.1
-
19
-
-
39549084433
-
NetMHCpan, a method for quantitative predictions of peptide binding to any HLA-A and-B locus protein of known sequence
-
Nielsen, M. et al. (2007a) NetMHCpan, a method for quantitative predictions of peptide binding to any HLA-A and-B locus protein of known sequence. PLoS One, 2, e796.
-
(2007)
PLoS One, 2, e796
-
-
Nielsen, M.1
-
20
-
-
34547778364
-
Prediction of MHC class II binding affinity using SMM-align, a novel stabilization matrix alignment method
-
Nielsen, M. et al. (2007b) Prediction of MHC class II binding affinity using SMM-align, a novel stabilization matrix alignment method. BMC Bioinformatics, 8, 238.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 238
-
-
Nielsen, M.1
-
21
-
-
33745584371
-
A community resource benchmarking predictions of peptide binding to MHC-I molecules
-
Peters, B. et al. (2006) A community resource benchmarking predictions of peptide binding to MHC-I molecules. PLoS Comput. Biol., 2, e65.
-
(2006)
PLoS Comput. Biol.
, vol.2
, pp. e65
-
-
Peters, B.1
-
22
-
-
0033388725
-
SYFPEITHI: Database for MHC ligands and peptide motifs
-
Rammensee, H. et al. (1999) SYFPEITHI: database for MHC ligands and peptide motifs. Immunogenetics, 50, 213-219.
-
(1999)
Immunogenetics
, vol.50
, pp. 213-219
-
-
Rammensee, H.1
-
23
-
-
0027399243
-
Peptides naturally presented by MHC class i molecules
-
Rammensee, H. G. et al. (1993) Peptides naturally presented by MHC class I molecules. Annu. Rev. Immunol., 11, 213-244.
-
(1993)
Annu. Rev. Immunol.
, vol.11
, pp. 213-244
-
-
Rammensee, H.G.1
-
24
-
-
77949352951
-
The MHC motif viewer: A visualization tool for MHC binding motifs
-
John E Coligan Al, Chapter 18, Unit 18. 17
-
Rapin, N. et al. (2010) The MHC motif viewer: a visualization tool for MHC binding motifs. Curr. Protoc. Immunol. Ed. John E Coligan Al, Chapter 18, Unit 18. 17.
-
(2010)
Curr. Protoc. Immunol. Ed
-
-
Rapin, N.1
-
25
-
-
84880118403
-
HLA peptide length preferences control CD8T cell responses
-
Rist, M. J. et al. (2013) HLA peptide length preferences control CD8T cell responses. J. Immunol, 191, 561-571.
-
(2013)
J. Immunol
, vol.191
, pp. 561-571
-
-
Rist, M.J.1
-
26
-
-
84946045336
-
The RCSB Protein Data Bank: Views of structural biology for basic and applied research and education
-
Rose, P. W. et al. (2015) The RCSB Protein Data Bank: views of structural biology for basic and applied research and education. Nucleic Acids Res., 43, D345-D356.
-
(2015)
Nucleic Acids Res.
, vol.43
, pp. D345-D356
-
-
Rose, P.W.1
-
27
-
-
0033729569
-
Longer peptide can be accommodated in the MHC class i binding site by a protrusion mechanism
-
Stryhn, A. et al. (2000) Longer peptide can be accommodated in the MHC class I binding site by a protrusion mechanism. Eur. J. Immunol., 30, 3089-3099.
-
(2000)
Eur. J. Immunol.
, vol.30
, pp. 3089-3099
-
-
Stryhn, A.1
-
28
-
-
77950374922
-
Constraints within major histocompatibility complex class i restricted peptides: Presentation and consequences for T-cell recognition
-
Theodossis, A. et al. (2010) Constraints within major histocompatibility complex class I restricted peptides: presentation and consequences for T-cell recognition. Proc. Natl Acad. Sci. U. S. A., 107, 5534-5539.
-
(2010)
Proc. Natl Acad. Sci. U. S. A.
, vol.107
, pp. 5534-5539
-
-
Theodossis, A.1
-
29
-
-
84904250653
-
NetTepi: An integrated method for the prediction of T cell epitopes
-
Trolle, T. and Nielsen, M. (2014) NetTepi: an integrated method for the prediction of T cell epitopes. Immunogenetics, 66, 449-456.
-
(2014)
Immunogenetics
, vol.66
, pp. 449-456
-
-
Trolle, T.1
Nielsen, M.2
-
30
-
-
84946076702
-
The immune epitope database (IEDB) 3. 0
-
Vita, R. et al. (2015) The immune epitope database (IEDB) 3. 0. Nucleic Acids Res., 43, D405-D412.
-
(2015)
Nucleic Acids Res.
, vol.43
, pp. D405-D412
-
-
Vita, R.1
-
31
-
-
84931260276
-
Quantitative prediction of class i MHC/epitope binding affinity using QSAR modeling derived from amino acid structural information
-
Wang, Y. et al. (2015) Quantitative prediction of class I MHC/epitope binding affinity using QSAR modeling derived from amino acid structural information. Comb. Chem. High Throughput Screen., 18, 75-82.
-
(2015)
Comb. Chem. High Throughput Screen.
, vol.18
, pp. 75-82
-
-
Wang, Y.1
|