-
1
-
-
34247891741
-
More than one reason to rethink the use of peptides in vaccine design
-
Purcell AW, McCluskey J, Rossjohn J. More than one reason to rethink the use of peptides in vaccine design. Nat Rev Drug Discov 2007 6 : 404 414.
-
(2007)
Nat Rev Drug Discov
, vol.6
, pp. 404-414
-
-
Purcell, A.W.1
McCluskey, J.2
Rossjohn, J.3
-
2
-
-
40849147099
-
Computer-aided biotechnology: From immuno-informatics to reverse vaccinology
-
Vivona S, Gardy JL, Ramachandran S, Brinkman FS, Raghava GP, Flower DR, Filippini F. Computer-aided biotechnology: from immuno-informatics to reverse vaccinology. Trends Biotechnol 2008 26 : 190 200.
-
(2008)
Trends Biotechnol
, vol.26
, pp. 190-200
-
-
Vivona, S.1
Gardy, J.L.2
Ramachandran, S.3
Brinkman, F.S.4
Raghava, G.P.5
Flower, D.R.6
Filippini, F.7
-
3
-
-
70449338115
-
Systematic characterisation of cellular localisation and expression profiles of proteins containing MHC ligands
-
Juncker AS, Larsen MV, Weinhold N, Nielsen M, Brunak S, Lund O. Systematic characterisation of cellular localisation and expression profiles of proteins containing MHC ligands. PLoS ONE 2009 4 : e7448.
-
(2009)
PLoS ONE
, vol.4
, pp. 7448
-
-
Juncker, A.S.1
Larsen, M.V.2
Weinhold, N.3
Nielsen, M.4
Brunak, S.5
Lund, O.6
-
5
-
-
18644375874
-
+ T cells by exogenous cell-associated antigens
-
+ T cells by exogenous cell-associated antigens. Immunity 2002 17 : 211 220.
-
(2002)
Immunity
, vol.17
, pp. 211-220
-
-
Jung, S.1
Unutmaz, D.2
Wong, P.3
-
6
-
-
73949097613
-
Different cross-presentation pathways in steady-state and inflammatory dendritic cells
-
Segura E, Albiston AL, Wicks IP, Chai SY, Villadangos JA. Different cross-presentation pathways in steady-state and inflammatory dendritic cells. Proc Natl Acad Sci USA 2009 106 : 20377 20381.
-
(2009)
Proc Natl Acad Sci USA
, vol.106
, pp. 20377-20381
-
-
Segura, E.1
Albiston, A.L.2
Wicks, I.P.3
Chai, S.Y.4
Villadangos, J.A.5
-
7
-
-
34548736008
-
Recent advances in antigen processing and presentation
-
Jensen PE. Recent advances in antigen processing and presentation. Nat Immunol 2007 8 : 1041 1048.
-
(2007)
Nat Immunol
, vol.8
, pp. 1041-1048
-
-
Jensen, P.E.1
-
8
-
-
3242771511
-
Generation of major histocompatibility complex class i antigens: Functional interplay between proteasomes and TPPII
-
Kloetzel PM. Generation of major histocompatibility complex class I antigens: functional interplay between proteasomes and TPPII. Nat Immunol 2004 5 : 661 669.
-
(2004)
Nat Immunol
, vol.5
, pp. 661-669
-
-
Kloetzel, P.M.1
-
9
-
-
70349437285
-
The peptide-loading complex - Antigen translocation and MHC class i loading
-
Schölz C, Tampé R. The peptide-loading complex - antigen translocation and MHC class I loading. Biol Chem 2009 390 : 783 794.
-
(2009)
Biol Chem
, vol.390
, pp. 783-794
-
-
Schölz, C.1
Tampé, R.2
-
11
-
-
0346727127
-
Protein degradation and protection against misfolded or damaged proteins
-
Goldberg AL. Protein degradation and protection against misfolded or damaged proteins. Nature 2003 426 : 895 899.
-
(2003)
Nature
, vol.426
, pp. 895-899
-
-
Goldberg, A.L.1
-
12
-
-
68749106118
-
New roles of flavoproteins in molecular cell biology: An unexpected role for quinone reductases as regulators of proteasomal degradation
-
Sollner S, Macheroux P. New roles of flavoproteins in molecular cell biology: an unexpected role for quinone reductases as regulators of proteasomal degradation. FEBS J 2009 276 : 4313 4324.
-
(2009)
FEBS J
, vol.276
, pp. 4313-4324
-
-
Sollner, S.1
MacHeroux, P.2
-
13
-
-
65249098267
-
Catalytic mechanism and assembly of the proteasome
-
Marques AJ, Palanimurugan R, Matias AC, Ramos PC, Dohmen RJ. Catalytic mechanism and assembly of the proteasome. Chem Rev 2009 109 : 1509 1536.
-
(2009)
Chem Rev
, vol.109
, pp. 1509-1536
-
-
Marques, A.J.1
Palanimurugan, R.2
Matias, A.C.3
Ramos, P.C.4
Dohmen, R.J.5
-
14
-
-
33646587050
-
The intracellular antigen transport machinery TAP in adaptive immunity and virus escape mechanisms
-
Schölz C, Tampé R. The intracellular antigen transport machinery TAP in adaptive immunity and virus escape mechanisms. J Bioenerg Biomembr 2005 37 : 509 515.
-
(2005)
J Bioenerg Biomembr
, vol.37
, pp. 509-515
-
-
Schölz, C.1
Tampé, R.2
-
15
-
-
26844477450
-
Critical role for the tapasin-docking site of TAP2 in the functional integrity of the MHC class I-peptide-loading complex
-
Leonhardt RM, Keusekotten K, Bekpen C, Knittler MR. Critical role for the tapasin-docking site of TAP2 in the functional integrity of the MHC class I-peptide-loading complex. J Immunol 2005 175 : 5104 5114.
-
(2005)
J Immunol
, vol.175
, pp. 5104-5114
-
-
Leonhardt, R.M.1
Keusekotten, K.2
Bekpen, C.3
Knittler, M.R.4
-
16
-
-
0032005348
-
Soluble tapasin restores MHC class i expression and function in the tapasin-negative cell line.220
-
Lehner PJ, Surman MJ, Cresswell P. Soluble tapasin restores MHC class I expression and function in the tapasin-negative cell line.220. Immunity 1998 8 : 221 231.
-
(1998)
Immunity
, vol.8
, pp. 221-231
-
-
Lehner, P.J.1
Surman, M.J.2
Cresswell, P.3
-
17
-
-
0033046472
-
Immunodominance in major histocompatibility complex class I-restricted T lymphocyte responses
-
Yewdell JW, Bennink JR. Immunodominance in major histocompatibility complex class I-restricted T lymphocyte responses. Annu Rev Immunol 1999 17 : 51 88.
-
(1999)
Annu Rev Immunol
, vol.17
, pp. 51-88
-
-
Yewdell, J.W.1
Bennink, J.R.2
-
18
-
-
9644289334
-
The proteasome and MHC class i antigen processing
-
Kloetzel PM. The proteasome and MHC class I antigen processing. Biochim Biophys Acta 2004 1695 : 225 233.
-
(2004)
Biochim Biophys Acta
, vol.1695
, pp. 225-233
-
-
Kloetzel, P.M.1
-
19
-
-
77949352951
-
The MHC motif viewer: A visualization tool for MHC binding motifs
-
Chapter 18, Unit 18.17.
-
Rapin N, Hoof I, Lund O, Nielsen M. The MHC motif viewer: a visualization tool for MHC binding motifs. Curr Protoc Immunol 2010 Chapter 18, Unit 18.17.
-
Curr Protoc Immunol 2010
-
-
Rapin, N.1
Hoof, I.2
Lund, O.3
Nielsen, M.4
-
20
-
-
36949010425
-
Modelling the human immune system by combining bioinformatics and systems biology approaches
-
Rapin N, Kesmir C, Frankild S, Nielsen M, Lundegaard C, Brunak S, Lund O. Modelling the human immune system by combining bioinformatics and systems biology approaches. J Biol Phys 2006 32 : 335 353.
-
(2006)
J Biol Phys
, vol.32
, pp. 335-353
-
-
Rapin, N.1
Kesmir, C.2
Frankild, S.3
Nielsen, M.4
Lundegaard, C.5
Brunak, S.6
Lund, O.7
-
21
-
-
36949034073
-
Modeling the adaptive immune system: Predictions and simulations
-
Lundegaard C, Lund O, Kesmir C, Brunak S, Nielsen M. Modeling the adaptive immune system: predictions and simulations. Bioinformatics 2007 23 : 3265 3275.
-
(2007)
Bioinformatics
, vol.23
, pp. 3265-3275
-
-
Lundegaard, C.1
Lund, O.2
Kesmir, C.3
Brunak, S.4
Nielsen, M.5
-
22
-
-
0023115557
-
The relation between major histocompatibility complex (MHC) restriction and the capacity of Ia to bind immunogenic peptides
-
Buus S, Sette A, Colon SM, Miles C, Grey HM. The relation between major histocompatibility complex (MHC) restriction and the capacity of Ia to bind immunogenic peptides. Science 1987 235 : 1353 1358.
-
(1987)
Science
, vol.235
, pp. 1353-1358
-
-
Buus, S.1
Sette, A.2
Colon, S.M.3
Miles, C.4
Grey, H.M.5
-
23
-
-
0028842070
-
Several HLA alleles share overlapping peptide specificities
-
Sidney J, del Guercio MF, Southwood S et al. Several HLA alleles share overlapping peptide specificities. J Immunol 1995 154 : 247 259.
-
(1995)
J Immunol
, vol.154
, pp. 247-259
-
-
Sidney, J.1
Del Guercio, M.F.2
Southwood, S.3
-
24
-
-
44649087768
-
The classification of HLA supertypes by GRID/CPCA and hierarchical clustering methods
-
Guan P, Doytchinova IA, Flower DR. The classification of HLA supertypes by GRID/CPCA and hierarchical clustering methods. Methods Mol Biol 2007 409 : 143 154.
-
(2007)
Methods Mol Biol
, vol.409
, pp. 143-154
-
-
Guan, P.1
Doytchinova, I.A.2
Flower, D.R.3
-
25
-
-
44649137451
-
Definition of MHC supertypes through clustering of MHC peptide-binding repertoires
-
Reche PA, Reinherz EL. Definition of MHC supertypes through clustering of MHC peptide-binding repertoires. Methods Mol Biol 2007 409 : 163 173.
-
(2007)
Methods Mol Biol
, vol.409
, pp. 163-173
-
-
Reche, P.A.1
Reinherz, E.L.2
-
26
-
-
1642407844
-
Identifiying human MHC supertypes using bioinformatic methods
-
Doytchinova IA, Guan P, Flower DR. Identifiying human MHC supertypes using bioinformatic methods. J Immunol 2004 172 : 4314 4323.
-
(2004)
J Immunol
, vol.172
, pp. 4314-4323
-
-
Doytchinova, I.A.1
Guan, P.2
Flower, D.R.3
-
27
-
-
33846662153
-
Identifying HLA supertypes by learning distance functions
-
Hertz T, Yanover C. Identifying HLA supertypes by learning distance functions. Bioinformatics 2007 23 : e148 55.
-
(2007)
Bioinformatics
, vol.23
, pp. 148-55
-
-
Hertz, T.1
Yanover, C.2
-
28
-
-
2342561929
-
Definition of supertypes for HLA molecules using clustering of specificity matrices
-
Lund O, Nielsen M, Kesmir C et al. Definition of supertypes for HLA molecules using clustering of specificity matrices. Immunogenetics 2004 55 : 797 810.
-
(2004)
Immunogenetics
, vol.55
, pp. 797-810
-
-
Lund, O.1
Nielsen, M.2
Kesmir, C.3
-
29
-
-
39649122106
-
HLA class i supertypes: A revised and updated classification
-
Sidney J, Peters B, Frahm N, Brander C, Sette A. HLA class I supertypes: a revised and updated classification. BMC Immunol 2008 9 : 1471 2172.
-
(2008)
BMC Immunol
, vol.9
, pp. 1471-2172
-
-
Sidney, J.1
Peters, B.2
Frahm, N.3
Brander, C.4
Sette, A.5
-
31
-
-
58149336996
-
Essential differences in ligand presentation and T cell epitope recognition among HLA molecules of the HLA-B44 supertype
-
Hillen N, Mester G, Lemmel C et al. Essential differences in ligand presentation and T cell epitope recognition among HLA molecules of the HLA-B44 supertype. Eur J Immunol 2008 38 : 2993 3003.
-
(2008)
Eur J Immunol
, vol.38
, pp. 2993-3003
-
-
Hillen, N.1
Mester, G.2
Lemmel, C.3
-
32
-
-
33745584371
-
A community resource benchmarking predictions of peptide binding to MHC-I molecules
-
Peters B, Bui HH, Frankild S et al. A community resource benchmarking predictions of peptide binding to MHC-I molecules. PLoS Comput Biol 2006 2 : e65.
-
(2006)
PLoS Comput Biol
, vol.2
, pp. 65
-
-
Peters, B.1
Bui, H.H.2
Frankild, S.3
-
33
-
-
33646181088
-
How TCRs bind MHCs, peptides, and coreceptors
-
Rudolph MG, Stanfield RL, Wilson IA. How TCRs bind MHCs, peptides, and coreceptors. Annu Rev Immunol 2006 24 : 419 466.
-
(2006)
Annu Rev Immunol
, vol.24
, pp. 419-466
-
-
Rudolph, M.G.1
Stanfield, R.L.2
Wilson, I.A.3
-
34
-
-
0033388725
-
SYFPEITHI: Database for MHC ligands and peptide motifs
-
Rammensee H, Bachmann J, Emmerich NP, Bachor OA, Stevanovic S. SYFPEITHI: database for MHC ligands and peptide motifs. Immunogenetics 1999 50 : 213 219.
-
(1999)
Immunogenetics
, vol.50
, pp. 213-219
-
-
Rammensee, H.1
Bachmann, J.2
Emmerich, N.P.3
Bachor, O.A.4
Stevanovic, S.5
-
36
-
-
0035993241
-
Establishment of a quantitative ELISA capable of determining peptide-MHC class i interaction
-
Sylvester-Hvid C, Kristensen N, Blicher T et al. Establishment of a quantitative ELISA capable of determining peptide-MHC class I interaction. Tissue Antigens 2002 59 : 251 258.
-
(2002)
Tissue Antigens
, vol.59
, pp. 251-258
-
-
Sylvester-Hvid, C.1
Kristensen, N.2
Blicher, T.3
-
37
-
-
61849124792
-
Peptide binding to HLA class i molecules: Homogenous, high-throughput screening, and affinity assays
-
Harndahl M, Justesen S, Lamberth K, Røder G, Nielsen M, Buus S. Peptide binding to HLA class I molecules: homogenous, high-throughput screening, and affinity assays. J Biomol Screen 2009 14 : 173 180.
-
(2009)
J Biomol Screen
, vol.14
, pp. 173-180
-
-
Harndahl, M.1
Justesen, S.2
Lamberth, K.3
Røder, G.4
Nielsen, M.5
Buus, S.6
-
38
-
-
0028915529
-
Receptor-ligand interactions measured by an improved spun column chromatography technique. A high efficiency and high throughput size separation method
-
Buus S, Stryhn A, Winther K, Kirkby N, Pedersen LO. Receptor-ligand interactions measured by an improved spun column chromatography technique. A high efficiency and high throughput size separation method. Biochim Biophys Acta 1995 1243 : 453 460.
-
(1995)
Biochim Biophys Acta
, vol.1243
, pp. 453-460
-
-
Buus, S.1
Stryhn, A.2
Winther, K.3
Kirkby, N.4
Pedersen, L.O.5
-
39
-
-
0027205314
-
Direct detection of major histocompatibility complex class i binding to antigenic peptides using surface plasmon resonance. Peptide immobilization and characterization of binding specificity
-
Khilko SN, Corr M, Boyd LF, Lees A, Inman JK, Margulies DH. Direct detection of major histocompatibility complex class I binding to antigenic peptides using surface plasmon resonance. Peptide immobilization and characterization of binding specificity. J Biol Chem 1993 268 : 15425 15434.
-
(1993)
J Biol Chem
, vol.268
, pp. 15425-15434
-
-
Khilko, S.N.1
Corr, M.2
Boyd, L.F.3
Lees, A.4
Inman, J.K.5
Margulies, D.H.6
-
40
-
-
67650270386
-
Identification of human MHC class i binding peptides using the iTOPIA-epitope discovery system
-
Wulf M, Hoehn P, Trinder P. Identification of human MHC class I binding peptides using the iTOPIA-epitope discovery system. Methods Mol Biol 2009 524 : 361 367.
-
(2009)
Methods Mol Biol
, vol.524
, pp. 361-367
-
-
Wulf, M.1
Hoehn, P.2
Trinder, P.3
-
41
-
-
0025293739
-
Assembly of MHC class i molecules analyzed in vitro
-
Townsend A, Elliott T, Cerundolo V, Foster L, Barber B, Tse A. Assembly of MHC class I molecules analyzed in vitro. Cell 1990 62 : 285 295.
-
(1990)
Cell
, vol.62
, pp. 285-295
-
-
Townsend, A.1
Elliott, T.2
Cerundolo, V.3
Foster, L.4
Barber, B.5
Tse, A.6
-
42
-
-
77953528024
-
Pillars article: Association of class i major histocompatibility heavy and light chains induced by viral peptides. Nature 1989. 340: 443-448
-
Townsend A, Ohlén C, Bastin J, Ljunggren HG, Foster L, Kärre K. Pillars article: association of class I major histocompatibility heavy and light chains induced by viral peptides. Nature 1989. 340: 443-448. J Immunol 2007 179 : 4301 4306.
-
(2007)
J Immunol
, vol.179
, pp. 4301-4306
-
-
Townsend, A.1
Ohlén, C.2
Bastin, J.3
Ljunggren, H.G.4
Foster, L.5
Kärre, K.6
-
43
-
-
0027955071
-
A quantitative assay to measure the interaction between immunogenic peptides and purified class i major histocompatibility complex molecules
-
Olsen AC, Pedersen LO, Hansen AS, Nissen MH, Olsen M, Hansen PR, Holm A, Buus S. A quantitative assay to measure the interaction between immunogenic peptides and purified class I major histocompatibility complex molecules. Eur J Immunol 1994 24 : 385 392.
-
(1994)
Eur J Immunol
, vol.24
, pp. 385-392
-
-
Olsen, A.C.1
Pedersen, L.O.2
Hansen, A.S.3
Nissen, M.H.4
Olsen, M.5
Hansen, P.R.6
Holm, A.7
Buus, S.8
-
44
-
-
20944447214
-
The immune epitope database and analysis resource: From vision to blueprint
-
Peters B, Sidney J, Bourne P et al. The immune epitope database and analysis resource: from vision to blueprint. PLoS Biol 2005 3 : e91.
-
(2005)
PLoS Biol
, vol.3
, pp. 91
-
-
Peters, B.1
Sidney, J.2
Bourne, P.3
-
45
-
-
70449416038
-
Prediction of MHC-peptide binding: A systematic and comprehensive overview
-
Lafuente EM, Reche PA. Prediction of MHC-peptide binding: a systematic and comprehensive overview. Curr Pharm Des 2009 15 : 3209 3220.
-
(2009)
Curr Pharm des
, vol.15
, pp. 3209-3220
-
-
Lafuente, E.M.1
Reche, P.A.2
-
46
-
-
77949494386
-
Limitations of Ab initio predictions of peptide binding to MHC class II molecules
-
Zhang H, Wang P, Papangelopoulos N., et al. Limitations of Ab initio predictions of peptide binding to MHC class II molecules. PLoS One 2010 5 : e9272.
-
(2010)
PLoS One
, vol.5
, pp. 9272
-
-
Zhang, H.1
Wang, P.2
Papangelopoulos, N.3
-
47
-
-
0025155682
-
Cellular peptide composition governed by major histocompatibility complex class i molecules
-
Falk K, Rotzschke O, Rammensee HG. Cellular peptide composition governed by major histocompatibility complex class I molecules. Nature 1990 348 : 248 251.
-
(1990)
Nature
, vol.348
, pp. 248-251
-
-
Falk, K.1
Rotzschke, O.2
Rammensee, H.G.3
-
48
-
-
0025855156
-
Allele-specific motifs revealed by sequencing of self-peptides eluted from MHC molecules
-
Falk K, Rötzschke O, Stevanović S, Jung G, Rammensee HG. Allele-specific motifs revealed by sequencing of self-peptides eluted from MHC molecules. Nature 1991 351 : 290 296.
-
(1991)
Nature
, vol.351
, pp. 290-296
-
-
Falk, K.1
Rötzschke, O.2
Stevanović, S.3
Jung, G.4
Rammensee, H.G.5
-
49
-
-
2942524864
-
Prediction of major histocompatibility complex binding regions of protein antigens by sequence pattern analysis
-
Sette A, Buus S, Appella E, Smith JA, Chesnut R, Miles C, Colon SM, Grey HM. Prediction of major histocompatibility complex binding regions of protein antigens by sequence pattern analysis. Proc Natl Acad Sci USA 1989 86 : 3296 3300.
-
(1989)
Proc Natl Acad Sci USA
, vol.86
, pp. 3296-3300
-
-
Sette, A.1
Buus, S.2
Appella, E.3
Smith, J.A.4
Chesnut, R.5
Miles, C.6
Colon, S.M.7
Grey, H.M.8
-
50
-
-
0023797009
-
T-immunogenic peptides are constituted of rare sequence patterns. Use in the identification of T epitopes in the human immunodeficiency virus gag protein
-
Claverie JM, Kourilsky P, Langlade-Demoyen P, Chalufour-Prochnicka A, Dadaglio G, Tekaia F, Plata F, Bougueleret L. T-immunogenic peptides are constituted of rare sequence patterns. Use in the identification of T epitopes in the human immunodeficiency virus gag protein. Eur J Immunol 1988 18 : 1547 1553.
-
(1988)
Eur J Immunol
, vol.18
, pp. 1547-1553
-
-
Claverie, J.M.1
Kourilsky, P.2
Langlade-Demoyen, P.3
Chalufour-Prochnicka, A.4
Dadaglio, G.5
Tekaia, F.6
Plata, F.7
Bougueleret, L.8
-
51
-
-
0028052724
-
Scheme for ranking potential HLA-A2 binding peptides based on independent binding of individual peptide side-chains
-
Parker KC, Bednarek MA, Coligan JE. Scheme for ranking potential HLA-A2 binding peptides based on independent binding of individual peptide side-chains. J Immunol 1994 152 : 163 175.
-
(1994)
J Immunol
, vol.152
, pp. 163-175
-
-
Parker, K.C.1
Bednarek, M.A.2
Coligan, J.E.3
-
52
-
-
9444240941
-
Peptide binding specificity of major histocompatibility complex class i resolved into an array of apparently independent subspecificities: Quantitation by peptide libraries and improved prediction of binding
-
Stryhn A, Pedersen LO, Romme T, Holm CB, Holm A, Buus S. Peptide binding specificity of major histocompatibility complex class I resolved into an array of apparently independent subspecificities: quantitation by peptide libraries and improved prediction of binding. Eur J Immunol 1996 26 : 1911 1918.
-
(1996)
Eur J Immunol
, vol.26
, pp. 1911-1918
-
-
Stryhn, A.1
Pedersen, L.O.2
Romme, T.3
Holm, C.B.4
Holm, A.5
Buus, S.6
-
53
-
-
0033866228
-
An automated prediction of MHC class I-binding peptides based on positional scanning with peptide libraries
-
Udaka K, Wiesmüller KH, Kienle S et al. An automated prediction of MHC class I-binding peptides based on positional scanning with peptide libraries. Immunogenetics 2000 51 : 816 828.
-
(2000)
Immunogenetics
, vol.51
, pp. 816-828
-
-
Udaka, K.1
Wiesmüller, K.H.2
Kienle, S.3
-
54
-
-
2442499729
-
Improved prediction of MHC class i and class II epitopes using a novel Gibbs sampling approach
-
Nielsen M, Lundegaard C, Worning P, Hvid CS, Lamberth K, Buus S, Brunak S, Lund O. Improved prediction of MHC class I and class II epitopes using a novel Gibbs sampling approach. Bioinformatics 2004 20 : 1388 1397.
-
(2004)
Bioinformatics
, vol.20
, pp. 1388-1397
-
-
Nielsen, M.1
Lundegaard, C.2
Worning, P.3
Hvid, C.S.4
Lamberth, K.5
Buus, S.6
Brunak, S.7
Lund, O.8
-
55
-
-
0036727207
-
Prediction of MHC class i binding peptides using profile motifs
-
Reche PA, Glutting JP, Reinherz EL. Prediction of MHC class I binding peptides using profile motifs. Hum Immunol 2002 63 : 701 709.
-
(2002)
Hum Immunol
, vol.63
, pp. 701-709
-
-
Reche, P.A.1
Glutting, J.P.2
Reinherz, E.L.3
-
56
-
-
0012256376
-
Quantitative predictions of peptide binding to MHC class i molecules using specificity matrices and anchor-stratified calibrations
-
Lauemøller SL, Holm A, Hilden J, Brunak S, Holst Nissen M, Stryhn A, Østergaard Pedersen L, Buus S. Quantitative predictions of peptide binding to MHC class I molecules using specificity matrices and anchor-stratified calibrations. Tissue Antigens 2001 57 : 405 414.
-
(2001)
Tissue Antigens
, vol.57
, pp. 405-414
-
-
Lauemøller, S.L.1
Holm, A.2
Hilden, J.3
Brunak, S.4
Holst Nissen, M.5
Stryhn, A.6
Østergaard Pedersen, L.7
Buus, S.8
-
57
-
-
0032387825
-
Predicting peptides that bind to MHC molecules using supervised learning of hidden Markov models
-
Mamitsuka H. Predicting peptides that bind to MHC molecules using supervised learning of hidden Markov models. Proteins 1998 33 : 460 474.
-
(1998)
Proteins
, vol.33
, pp. 460-474
-
-
Mamitsuka, H.1
-
58
-
-
21344466799
-
Automated generation and evaluation of specific MHC binding predictive tools: ARB matrix applications
-
Bui HH, Sidney J, Peters B et al. Automated generation and evaluation of specific MHC binding predictive tools: ARB matrix applications. Immunogenetics 2005 57 : 304 314.
-
(2005)
Immunogenetics
, vol.57
, pp. 304-314
-
-
Bui, H.H.1
Sidney, J.2
Peters, B.3
-
59
-
-
25444476693
-
Generating quantitative models describing the sequence specificity of biological processes with the stabilized matrix method
-
Peters B, Sette A. Generating quantitative models describing the sequence specificity of biological processes with the stabilized matrix method. BMC Bioinformatics 2005 6 : 132.
-
(2005)
BMC Bioinformatics
, vol.6
, pp. 132
-
-
Peters, B.1
Sette, A.2
-
60
-
-
0141617555
-
Examining the independent binding assumption for binding of peptide epitopes to MHC-1 molecules
-
Peters B, Tong WW, Sidney J, Sette A, Weng ZP. Examining the independent binding assumption for binding of peptide epitopes to MHC-1 molecules. Bioinformatics 2003 19 : 1765 1772.
-
(2003)
Bioinformatics
, vol.19
, pp. 1765-1772
-
-
Peters, B.1
Tong, W.W.2
Sidney, J.3
Sette, A.4
Weng, Z.P.5
-
62
-
-
10744222046
-
Sensitive quantitative predictions of peptide-MHC binding by a 'Query by Committee' artificial neural network approach
-
Buus S, Lauemoller SL, Worning P et al. Sensitive quantitative predictions of peptide-MHC binding by a 'Query by Committee' artificial neural network approach. Tissue Antigens 2003 62 : 378 384.
-
(2003)
Tissue Antigens
, vol.62
, pp. 378-384
-
-
Buus, S.1
Lauemoller, S.L.2
Worning, P.3
-
63
-
-
0037407113
-
Reliable prediction of T-cell epitopes using neural networks with novel sequence representations
-
Nielsen M, Lundegaard C, Worning P, Lauemoller SL, Lamberth K, Buus S, Brunak S, Lund O. Reliable prediction of T-cell epitopes using neural networks with novel sequence representations. Protein Sci 2003 12 : 1007 1017.
-
(2003)
Protein Sci
, vol.12
, pp. 1007-1017
-
-
Nielsen, M.1
Lundegaard, C.2
Worning, P.3
Lauemoller, S.L.4
Lamberth, K.5
Buus, S.6
Brunak, S.7
Lund, O.8
-
64
-
-
0142174642
-
Prediction of MHC class i binding peptides, using SVMHC
-
Donnes P, Elofsson A. Prediction of MHC class I binding peptides, using SVMHC. BMC Bioinformatics 2002 3 : 25.
-
(2002)
BMC Bioinformatics
, vol.3
, pp. 25
-
-
Donnes, P.1
Elofsson, A.2
-
65
-
-
33847710294
-
Prediction of supertype-specific HLA class i binding peptides using support vector machines
-
Zhang GL, Bozic I, Kwoh CK, August JT, Brusic V. Prediction of supertype-specific HLA class I binding peptides using support vector machines. J Immunol Methods 2007 320 : 143 154.
-
(2007)
J Immunol Methods
, vol.320
, pp. 143-154
-
-
Zhang, G.L.1
Bozic, I.2
Kwoh, C.K.3
August, J.T.4
Brusic, V.5
-
66
-
-
0142148183
-
Application of support vector machines for T-cell epitopes prediction
-
Zhao Y, Pinilla C, Valmori D, Martin R, Simon R. Application of support vector machines for T-cell epitopes prediction. Bioinformatics 2003 19 : 1978.
-
(2003)
Bioinformatics
, vol.19
, pp. 1978
-
-
Zhao, Y.1
Pinilla, C.2
Valmori, D.3
Martin, R.4
Simon, R.5
-
67
-
-
3843052528
-
Prediction of CTL epitopes using QM, SVM and ANN techniques
-
Bhasin M, Raghava GP. Prediction of CTL epitopes using QM, SVM and ANN techniques. Vaccine 2004 22 : 3195 3204.
-
(2004)
Vaccine
, vol.22
, pp. 3195-3204
-
-
Bhasin, M.1
Raghava, G.P.2
-
68
-
-
48449106045
-
NetMHC-3.0: Accurate web accessible predictions of human, mouse and monkey MHC class i affinities for peptides of length 8-11
-
Lundegaard C, Lamberth K, Harndahl M, Buus S, Lund O, Nielsen M. NetMHC-3.0: accurate web accessible predictions of human, mouse and monkey MHC class I affinities for peptides of length 8-11. Nucleic Acids Res 2008 36 : W509 12.
-
(2008)
Nucleic Acids Res
, vol.36
, pp. 509-12
-
-
Lundegaard, C.1
Lamberth, K.2
Harndahl, M.3
Buus, S.4
Lund, O.5
Nielsen, M.6
-
69
-
-
42549105195
-
Evaluation of MHC class i peptide binding prediction servers: Applications for vaccine research
-
Lin HH, Ray S, Tongchusak S, Reinherz EL, Brusic V. Evaluation of MHC class I peptide binding prediction servers: applications for vaccine research. BMC Immunol 2008 9 : 8.
-
(2008)
BMC Immunol
, vol.9
, pp. 8
-
-
Lin, H.H.1
Ray, S.2
Tongchusak, S.3
Reinherz, E.L.4
Brusic, V.5
-
70
-
-
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, Lund O, Nielsen M. 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 2008 24 : 1397 1398.
-
(2008)
Bioinformatics
, vol.24
, pp. 1397-1398
-
-
Lundegaard, C.1
Lund, O.2
Nielsen, M.3
-
71
-
-
34548794906
-
Extensive HLA class i allele promiscuity among viral CTL epitopes
-
Frahm N, Yusim K, Suscovich TJ et al. Extensive HLA class I allele promiscuity among viral CTL epitopes. Eur J Immunol 2007 37 : 2419 2433.
-
(2007)
Eur J Immunol
, vol.37
, pp. 2419-2433
-
-
Frahm, N.1
Yusim, K.2
Suscovich, T.J.3
-
72
-
-
54049098254
-
The peptide-binding specificity of HLA-A*3001 demonstrates membership of the HLA-A3 supertype
-
Lamberth K, Røder G, Harndahl M, Nielsen M, Lundegaard C, Schafer-Nielsen C, Lund O, Buus S. The peptide-binding specificity of HLA-A*3001 demonstrates membership of the HLA-A3 supertype. Immunogenetics 2008 60 : 633 643.
-
(2008)
Immunogenetics
, vol.60
, pp. 633-643
-
-
Lamberth, K.1
Røder, G.2
Harndahl, M.3
Nielsen, M.4
Lundegaard, C.5
Schafer-Nielsen, C.6
Lund, O.7
Buus, S.8
-
73
-
-
59449094834
-
NetMHCpan, a method for MHC class i binding prediction beyond humans
-
Hoof I, Peters B, Sidney J, Pedersen LE, Sette A, Lund O, Buus S, Nielsen M. NetMHCpan, a method for MHC class I binding prediction beyond humans. Immunogenetics 2009 61 : 1 13.
-
(2009)
Immunogenetics
, vol.61
, pp. 1-13
-
-
Hoof, I.1
Peters, B.2
Sidney, J.3
Pedersen, L.E.4
Sette, A.5
Lund, O.6
Buus, S.7
Nielsen, M.8
-
74
-
-
34547653712
-
Leveraging information across HLA alleles/supertypes improves epitope prediction
-
Heckerman D, Kadie C, Listgarten J. Leveraging information across HLA alleles/supertypes improves epitope prediction. J Comput Biol 2007 14 : 736 746.
-
(2007)
J Comput Biol
, vol.14
, pp. 736-746
-
-
Heckerman, D.1
Kadie, C.2
Listgarten, J.3
-
75
-
-
38849139819
-
Efficient peptide-MHC-I binding prediction for alleles with few known binders
-
Jacob L, Vert JP. Efficient peptide-MHC-I binding prediction for alleles with few known binders. Bioinformatics 2008 24 : 358 366.
-
(2008)
Bioinformatics
, vol.24
, pp. 358-366
-
-
Jacob, L.1
Vert, J.P.2
-
76
-
-
39549084433
-
NetMHCpan, a method for quantitative predictions of peptide binding to any HLA-A and -B locus protein of known sequence
-
Nielsen M, Lundegaard C, Blicher T et al. NetMHCpan, a method for quantitative predictions of peptide binding to any HLA-A and -B locus protein of known sequence. PLoS ONE 2007 2 : e796.
-
(2007)
PLoS ONE
, vol.2
, pp. 796
-
-
Nielsen, M.1
Lundegaard, C.2
Blicher, T.3
-
77
-
-
33845790971
-
A modular concept of HLA for comprehensive peptide binding prediction
-
DeLuca DS, Khattab B, Blasczyk R. A modular concept of HLA for comprehensive peptide binding prediction. Immunogenetics 2007 59 : 25 35.
-
(2007)
Immunogenetics
, vol.59
, pp. 25-35
-
-
Deluca, D.S.1
Khattab, B.2
Blasczyk, R.3
-
78
-
-
65549131038
-
The PickPocket method for predicting binding specificities for receptors based on receptor pocket similarities: Application to MHC-peptide binding
-
Zhang H, Lund O, Nielsen M. The PickPocket method for predicting binding specificities for receptors based on receptor pocket similarities: application to MHC-peptide binding. Bioinformatics 2009 25 : 1293 1299.
-
(2009)
Bioinformatics
, vol.25
, pp. 1293-1299
-
-
Zhang, H.1
Lund, O.2
Nielsen, M.3
-
79
-
-
58049217445
-
Pan-specific MHC class i predictors: A benchmark of HLA class i pan-specific prediction methods
-
Zhang H, Lundegaard C, Nielsen M. Pan-specific MHC class I predictors: a benchmark of HLA class I pan-specific prediction methods. Bioinformatics 2009 25 : 83 9.
-
(2009)
Bioinformatics
, vol.25
, pp. 83-9
-
-
Zhang, H.1
Lundegaard, C.2
Nielsen, M.3
-
80
-
-
17844385106
-
The role of the proteasome in generating cytotoxic T-cell epitopes: Insights obtained from improved predictions of proteasomal cleavage
-
Nielsen M, Lundegaard C, Lund O, Keşmir C. The role of the proteasome in generating cytotoxic T-cell epitopes: insights obtained from improved predictions of proteasomal cleavage. Immunogenetics 2005 57 : 33 41.
-
(2005)
Immunogenetics
, vol.57
, pp. 33-41
-
-
Nielsen, M.1
Lundegaard, C.2
Lund, O.3
Keşmir, C.4
-
81
-
-
0041589474
-
Identifying MHC class i epitopes by predicting the TAP transport efficiency of epitope precursors
-
Peters B, Bulik S, Tampe R, Endert PMV, Holzhutter HG. Identifying MHC class I epitopes by predicting the TAP transport efficiency of epitope precursors. J Immunol 2003 171 : 1741 1749.
-
(2003)
J Immunol
, vol.171
, pp. 1741-1749
-
-
Peters, B.1
Bulik, S.2
Tampe, R.3
Endert, P.M.V.4
Holzhutter, H.G.5
-
83
-
-
20844434026
-
Modeling the MHC class i pathway by combining predictions of proteasomal cleavage, TAP transport and MHC class i binding
-
Tenzer S, Peters B, Bulik S et al. Modeling the MHC class I pathway by combining predictions of proteasomal cleavage, TAP transport and MHC class I binding. Cell Mol Life Sci 2005 62 : 1025 1037.
-
(2005)
Cell Mol Life Sci
, vol.62
, pp. 1025-1037
-
-
Tenzer, S.1
Peters, B.2
Bulik, S.3
-
84
-
-
23844528191
-
An integrative approach to CTL epitope prediction: A combined algorithm integrating MHC class i binding, TAP transport efficiency, and proteasomal cleavage predictions
-
Larsen MV, Lundegaard C, Lamberth K, Buus S, Brunak S, Lund O, Nielsen M. An integrative approach to CTL epitope prediction: a combined algorithm integrating MHC class I binding, TAP transport efficiency, and proteasomal cleavage predictions. Eur J Immunol 2005 35 : 2295 2303.
-
(2005)
Eur J Immunol
, vol.35
, pp. 2295-2303
-
-
Larsen, M.V.1
Lundegaard, C.2
Lamberth, K.3
Buus, S.4
Brunak, S.5
Lund, O.6
Nielsen, M.7
-
85
-
-
38049169092
-
Large-scale validation of methods for cytotoxic T-lymphocyte epitope prediction
-
Larsen MV, Lundegaard C, Lamberth K, Buus S, Lund O, Nielsen M. Large-scale validation of methods for cytotoxic T-lymphocyte epitope prediction. BMC Bioinformatics 2007 8 : 424.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 424
-
-
Larsen, M.V.1
Lundegaard, C.2
Lamberth, K.3
Buus, S.4
Lund, O.5
Nielsen, M.6
-
86
-
-
33947265265
-
CTL epitopes for influenza A including the H5N1 bird flu; Genome-, pathogen-, and HLA-wide screening
-
Wang M, Lamberth K, Harndahl M et al. CTL epitopes for influenza A including the H5N1 bird flu; genome-, pathogen-, and HLA-wide screening. Vaccine 2007 25 : 2823 2831.
-
(2007)
Vaccine
, vol.25
, pp. 2823-2831
-
-
Wang, M.1
Lamberth, K.2
Harndahl, M.3
-
87
-
-
58149165030
-
A mathematical framework for the selection of an optimal set of peptides for epitope-based vaccines
-
Toussaint NC, Dönnes P, Kohlbacher O. A mathematical framework for the selection of an optimal set of peptides for epitope-based vaccines. PLoS Comput Biol 2008 4 : e1000246.
-
(2008)
PLoS Comput Biol
, vol.4
, pp. 1000246
-
-
Toussaint, N.C.1
Dönnes, P.2
Kohlbacher, O.3
-
88
-
-
67849111553
-
OptiTope - A web server for the selection of an optimal set of peptides for epitope-based vaccines
-
Toussaint NC, Kohlbacher O. OptiTope - a web server for the selection of an optimal set of peptides for epitope-based vaccines. Nucleic Acids Res 2009 37 : W617 22.
-
(2009)
Nucleic Acids Res
, vol.37
, pp. 617-22
-
-
Toussaint, N.C.1
Kohlbacher, O.2
-
89
-
-
44449117504
-
Broadly immunogenic HLA class i supertype-restricted elite CTL epitopes recognized in a diverse population infected with different HIV-1 subtypes
-
Perez CL, Larsen MV, Gustafsson R et al. Broadly immunogenic HLA class I supertype-restricted elite CTL epitopes recognized in a diverse population infected with different HIV-1 subtypes. J Immunol 2008 180 : 5092 5100.
-
(2008)
J Immunol
, vol.180
, pp. 5092-5100
-
-
Perez, C.L.1
Larsen, M.V.2
Gustafsson, R.3
-
90
-
-
0034046248
-
Poor correspondence between predicted and experimental binding of peptides to class i MHC molecules
-
Andersen MH, Tan L, Søndergaard I, Zeuthen J, Elliott T, Haurum JS. Poor correspondence between predicted and experimental binding of peptides to class I MHC molecules. Tissue Antigens 2000 55 : 519 531.
-
(2000)
Tissue Antigens
, vol.55
, pp. 519-531
-
-
Andersen, M.H.1
Tan, L.2
Søndergaard, I.3
Zeuthen, J.4
Elliott, T.5
Haurum, J.S.6
-
91
-
-
0027399839
-
A method to quantify binding of unlabeled peptides to class i MHC molecules and detect their allele specificity
-
Elvin J, Potter C, Elliott T, Cerundolo V, Townsend A. A method to quantify binding of unlabeled peptides to class I MHC molecules and detect their allele specificity. J Immunol Methods 1993 158 : 161 171.
-
(1993)
J Immunol Methods
, vol.158
, pp. 161-171
-
-
Elvin, J.1
Potter, C.2
Elliott, T.3
Cerundolo, V.4
Townsend, A.5
-
92
-
-
70350457586
-
In silico methods for predicting T-cell epitopes: Dr Jekyll or Mr Hyde?
-
Gowthaman U, Agrewala JN. In silico methods for predicting T-cell epitopes: Dr Jekyll or Mr Hyde? Expert Rev Proteomics 2009 6 : 527 537.
-
(2009)
Expert Rev Proteomics
, vol.6
, pp. 527-537
-
-
Gowthaman, U.1
Agrewala, J.N.2
-
93
-
-
33746132748
-
+)-cell responses to vaccinia virus
-
+)-cell responses to vaccinia virus. Nat Biotechnol 2006 24 : 817 819.
-
(2006)
Nat Biotechnol
, vol.24
, pp. 817-819
-
-
Moutaftsi, M.1
Peters, B.2
Pasquetto, V.3
Tscharke, D.C.4
Sidney, J.5
Bui, H.H.6
Grey, H.7
Sette, A.8
-
95
-
-
43549119527
-
Mapping of cytotoxic T lymphocytes epitopes in E7 antigen of human papillomavirus type 11
-
Xu Y, Zhu KJ, Chen XZ, Zhao KJ, Lu ZM, Cheng H. Mapping of cytotoxic T lymphocytes epitopes in E7 antigen of human papillomavirus type 11. Arch Dermatol Res 2008 300 : 235 242.
-
(2008)
Arch Dermatol Res
, vol.300
, pp. 235-242
-
-
Xu, Y.1
Zhu, K.J.2
Chen, X.Z.3
Zhao, K.J.4
Lu, Z.M.5
Cheng, H.6
-
96
-
-
0028295047
-
Role of HLA-A motifs in identification of potential CTL epitopes in human papillomavirus type 16 E6 and E7 proteins
-
Kast WM, Brandt RM, Sidney J, Drijfhout JW, Kubo RT, Grey HM, Melief CJ, Sette A. Role of HLA-A motifs in identification of potential CTL epitopes in human papillomavirus type 16 E6 and E7 proteins. J Immunol 1994 152 : 3904 3912.
-
(1994)
J Immunol
, vol.152
, pp. 3904-3912
-
-
Kast, W.M.1
Brandt, R.M.2
Sidney, J.3
Drijfhout, J.W.4
Kubo, R.T.5
Grey, H.M.6
Melief, C.J.7
Sette, A.8
-
97
-
-
0027304399
-
Prominent role of secondary anchor residues in peptide binding to HLA-A2.1 molecules
-
Ruppert J, Sidney J, Celis E, Kubo RT, Grey HM, Sette A. Prominent role of secondary anchor residues in peptide binding to HLA-A2.1 molecules. Cell 1993 74 : 929 937.
-
(1993)
Cell
, vol.74
, pp. 929-937
-
-
Ruppert, J.1
Sidney, J.2
Celis, E.3
Kubo, R.T.4
Grey, H.M.5
Sette, A.6
-
98
-
-
53849146699
-
MHC-I-restricted epitopes conserved among variola and other related orthopoxviruses are recognized by T cells 30 years after vaccination
-
Tang ST, Wang M, Lamberth K, Harndahl M, Dziegiel MH, Claesson MH, Buus S, Lund O. MHC-I-restricted epitopes conserved among variola and other related orthopoxviruses are recognized by T cells 30 years after vaccination. Arch Virol 2008 153 : 1833 1844.
-
(2008)
Arch Virol
, vol.153
, pp. 1833-1844
-
-
Tang, S.T.1
Wang, M.2
Lamberth, K.3
Harndahl, M.4
Dziegiel, M.H.5
Claesson, M.H.6
Buus, S.7
Lund, O.8
-
99
-
-
63049122408
-
Mining the Leishmania genome for novel antigens and vaccine candidates
-
Herrera-Najera C, Piña-Aguilar R, Xacur-Garcia F, Ramirez-Sierra MJ, Dumonteil E. Mining the Leishmania genome for novel antigens and vaccine candidates. Proteomics 2009 9 : 1293 1301.
-
(2009)
Proteomics
, vol.9
, pp. 1293-1301
-
-
Herrera-Najera, C.1
Piña-Aguilar, R.2
Xacur-Garcia, F.3
Ramirez-Sierra, M.J.4
Dumonteil, E.5
-
100
-
-
7944223046
-
Computational methods for prediction of T-cell epitopes - A framework for modelling, testing, and applications
-
Brusic V, Bajic VB, Petrovsky N. Computational methods for prediction of T-cell epitopes - a framework for modelling, testing, and applications. Methods 2004 34 : 436 443.
-
(2004)
Methods
, vol.34
, pp. 436-443
-
-
Brusic, V.1
Bajic, V.B.2
Petrovsky, N.3
-
101
-
-
57649174707
-
Evaluation of MHC-II peptide binding prediction servers: Applications for vaccine research
-
Lin HH, Zhang GL, Tongchusak S, Reinherz EL, Brusic V. Evaluation of MHC-II peptide binding prediction servers: applications for vaccine research. BMC Bioinformatics 2008 9 (Suppl. 12 S22.
-
(2008)
BMC Bioinformatics
, vol.9
, Issue.SUPPL. 12
, pp. 22
-
-
Lin, H.H.1
Zhang, G.L.2
Tongchusak, S.3
Reinherz, E.L.4
Brusic, V.5
|