메뉴 건너뛰기




Volumn 6, Issue SUPPL. 2, 2010, Pages

State of the art and challenges in sequence based T-cell epitope prediction

Author keywords

[No Author keywords available]

Indexed keywords

EPITOPE; MAJOR HISTOCOMPATIBILITY ANTIGEN CLASS 2; T LYMPHOCYTE RECEPTOR; VACCINE;

EID: 78149352601     PISSN: None     EISSN: 17457580     Source Type: Journal    
DOI: 10.1186/1745-7580-6-S2-S3     Document Type: Review
Times cited : (53)

References (129)
  • 1
    • 33750009232 scopus 로고    scopus 로고
    • Zoonotic viral diseases and the frontier of early diagnosis, control and prevention
    • 10.1111/j.1365-2796.2006.01711.x. 17040245
    • Zoonotic viral diseases and the frontier of early diagnosis, control and prevention. JL Heeney, J Intern Med 2006 260 399 408 10.1111/j.1365-2796.2006. 01711.x 17040245
    • (2006) J Intern Med , vol.260 , pp. 399-408
    • Heeney, J.L.1
  • 2
    • 0035968359 scopus 로고    scopus 로고
    • The emergence of rabbit haemorrhagic disease virus: Will a non-pathogenic strain protect the UK?
    • 10.1098/rstb.2001.0897. 11516386
    • The emergence of rabbit haemorrhagic disease virus: will a non-pathogenic strain protect the UK? PJ White RA Norman RC Trout EA Gould PJ Hudson, Philos Trans R Soc Lond B Biol Sci 2001 356 1087 1095 10.1098/rstb.2001.0897 11516386
    • (2001) Philos Trans R Soc Lond B Biol Sci , vol.356 , pp. 1087-1095
    • White, P.J.1    Norman, R.A.2    Trout, R.C.3    Gould, E.A.4    Hudson, P.J.5
  • 3
    • 67349158649 scopus 로고    scopus 로고
    • Coronaviruses post-SARS: Update on replication and pathogenesis
    • 10.1038/nrmicro2147. 19430490
    • Coronaviruses post-SARS: update on replication and pathogenesis. S Perlman J Netland, Nat Rev Microbiol 2009 7 439 450 10.1038/nrmicro2147 19430490
    • (2009) Nat Rev Microbiol , vol.7 , pp. 439-450
    • Perlman, S.1    Netland, J.2
  • 4
    • 51649116909 scopus 로고    scopus 로고
    • Pathogenicity of highly pathogenic avian influenza virus in mammals
    • 10.1016/j.vaccine.2008.07.072. 19230161
    • Pathogenicity of highly pathogenic avian influenza virus in mammals. E de Wit Y Kawaoka MD de Jong RAM Fouchier, Vaccine 2008 26 Suppl 4 54 D58 10.1016/j.vaccine.2008.07.072 19230161
    • (2008) Vaccine , vol.26 , Issue.SUPPL. 4
    • De Wit, E.1    Kawaoka, Y.2    De Jong, M.D.3    Fouchier, R.A.M.4
  • 5
    • 68849095970 scopus 로고    scopus 로고
    • Swine-origin influenza virus H1N1, seasonal influenza virus, and critical illness in children
    • 10.1016/S0140-6736(09)61512-9. 19700000
    • Swine-origin influenza virus H1N1, seasonal influenza virus, and critical illness in children. P Lister F Reynolds R Parslow A Chan M Cooper A Plunkett S Riphagen M Peters, Lancet 2009 374 605 607 10.1016/S0140-6736(09)61512-9 19700000
    • (2009) Lancet , vol.374 , pp. 605-607
    • Lister, P.1    Reynolds, F.2    Parslow, R.3    Chan, A.4    Cooper, M.5    Plunkett, A.6    Riphagen, S.7    Peters, M.8
  • 6
    • 70350706218 scopus 로고    scopus 로고
    • Modelling the progression of pandemic influenza A (H1N1) in Vietnam and the opportunities for reassortment with other influenza viruses
    • 10.1186/1741-7015-7-43. 19728864
    • Modelling the progression of pandemic influenza A (H1N1) in Vietnam and the opportunities for reassortment with other influenza viruses. MF Boni BH Manh PQ Thai J Farrar TT Hien NT Hien NV Kinh P Horby, BMC Med 2009 7 43 10.1186/1741-7015-7-43 19728864
    • (2009) BMC Med , vol.7 , pp. 43
    • Boni, M.F.1    Manh, B.H.2    Thai, P.Q.3    Farrar, J.4    Hien, T.T.5    Hien, N.T.6    Kinh, N.V.7    Horby, P.8
  • 7
    • 32944464648 scopus 로고    scopus 로고
    • Pathogen recognition and innate immunity
    • 10.1016/j.cell.2006.02.015. 16497588
    • Pathogen recognition and innate immunity. S Akira S Uematsu O Takeuchi, Cell 2006 124 783 801 10.1016/j.cell.2006.02.015 16497588
    • (2006) Cell , vol.124 , pp. 783-801
    • Akira, S.1    Uematsu, S.2    Takeuchi, O.3
  • 8
    • 0344141397 scopus 로고    scopus 로고
    • New technologies for making vaccines
    • 10.1016/S0264-410X(98)00416-2. 10194811
    • New technologies for making vaccines. RW Ellis, Vaccine 1999 17 1596 1604 10.1016/S0264-410X(98)00416-2 10194811
    • (1999) Vaccine , vol.17 , pp. 1596-1604
    • Ellis, R.W.1
  • 9
    • 21244440958 scopus 로고    scopus 로고
    • Novel protein and poxvirus-based vaccine combinations for simultaneous induction of humoral and cell-mediated immunity
    • 15972697
    • Novel protein and poxvirus-based vaccine combinations for simultaneous induction of humoral and cell-mediated immunity. CL Hutchings SC Gilbert AV Hill AC Moore, J Immunol 2005 175 599 606 15972697
    • (2005) J Immunol , vol.175 , pp. 599-606
    • Hutchings, C.L.1    Gilbert, S.C.2    Hill, A.V.3    Moore, A.C.4
  • 11
    • 33751506565 scopus 로고    scopus 로고
    • Antigen Presentation and the Ubiquitin-Proteasome System in Host-Pathogen Interactions
    • full-text. 17145306
    • Antigen Presentation and the Ubiquitin-Proteasome System in Host-Pathogen Interactions. J Loureiroa HL Ploegha, Advances in Immunology 2006 92 225 305 full-text 17145306
    • (2006) Advances in Immunology , vol.92 , pp. 225-305
    • Loureiroa, J.1    Ploegha, H.L.2
  • 12
    • 0027980319 scopus 로고
    • Inhibitors of the proteasome block the degradation of most cell proteins and the generation of peptides presented on MHC class i molecules
    • 10.1016/S0092-8674(94)90462-6. 8087844
    • Inhibitors of the proteasome block the degradation of most cell proteins and the generation of peptides presented on MHC class I molecules. KL Rock C Gramm L Rothstein K Clark R Stein L Dick D Hwang AL Goldberg, Cell 1994 78 761 771 10.1016/S0092-8674(94)90462-6 8087844
    • (1994) Cell , vol.78 , pp. 761-771
    • Rock, K.L.1    Gramm, C.2    Rothstein, L.3    Clark, K.4    Stein, R.5    Dick, L.6    Hwang, D.7    Goldberg, A.L.8
  • 14
    • 0037386520 scopus 로고    scopus 로고
    • TAP-independent antigen presentation on MHC class i molecules: Lessons from Epstein - Barr virus
    • 10.1016/S1286-4579(03)00031-5. 12706442
    • TAP-independent antigen presentation on MHC class I molecules: Lessons from Epstein - Barr virus. G Lautscham A Rickinson N Blake, Microbes and Infection 2003 5 291 299 10.1016/S1286-4579(03)00031-5 12706442
    • (2003) Microbes and Infection , vol.5 , pp. 291-299
    • Lautscham, G.1    Rickinson, A.2    Blake, N.3
  • 15
    • 67649842408 scopus 로고    scopus 로고
    • MHC class i antigen presentation: Learning from viral evasion strategies
    • 10.1038/nri2575. 19498380
    • MHC class I antigen presentation: learning from viral evasion strategies. TH Hansen M Bouvier, Nat Rev Immunol 2009 9 503 513 10.1038/nri2575 19498380
    • (2009) Nat Rev Immunol , vol.9 , pp. 503-513
    • Hansen, T.H.1    Bouvier, M.2
  • 16
    • 0035893563 scopus 로고    scopus 로고
    • Immune escape of melanoma: First evidence of structural alterations in two distinct components of the MHC class i antigen processing pathway
    • 11751378
    • Immune escape of melanoma: first evidence of structural alterations in two distinct components of the MHC class I antigen processing pathway. B Seliger U Ritz R Abele M Bock R Tampé G Sutter I Drexler C Huber S Ferrone, Cancer Res 2001 61 8647 8650 11751378
    • (2001) Cancer Res , vol.61 , pp. 8647-8650
    • Seliger, B.1    Ritz, U.2    Abele, R.3    Bock, M.4    Tampé, R.5    Sutter, G.6    Drexler, I.7    Huber, C.8    Ferrone, S.9
  • 19
    • 33845798193 scopus 로고    scopus 로고
    • PRED(TAP): A system for prediction of peptide binding to the human transporter associated with antigen processing
    • 10.1186/1745-7580-2-3. 16719926
    • PRED(TAP): a system for prediction of peptide binding to the human transporter associated with antigen processing. GL Zhang N Petrovsky CK Kwoh JT August V Brusic, Immunome Res 2006 2 3 10.1186/1745-7580-2-3 16719926
    • (2006) Immunome Res , vol.2 , pp. 3
    • Zhang, G.L.1    Petrovsky, N.2    Kwoh, C.K.3    August, J.T.4    Brusic, V.5
  • 20
    • 33947606283 scopus 로고    scopus 로고
    • Analysis of interactions in a tapasin/class i complex provides a mechanism for peptide selection
    • 10.1038/sj.emboj.7601624. 17332746
    • Analysis of interactions in a tapasin/class I complex provides a mechanism for peptide selection. M Chen M Bouvier, EMBO J 2007 26 1681 1690 10.1038/sj.emboj.7601624 17332746
    • (2007) EMBO J , vol.26 , pp. 1681-1690
    • Chen, M.1    Bouvier, M.2
  • 21
    • 0344096462 scopus 로고    scopus 로고
    • Retention of empty MHC class i molecules by tapasin is essential to reconstitute antigen presentation in invertebrate cells
    • others. 10.1093/emboj/18.3.743. 9927434
    • Retention of empty MHC class I molecules by tapasin is essential to reconstitute antigen presentation in invertebrate cells. GJ Schoenhals RM Krishna AG Grandea, EMBO J 1999 18 743 others 10.1093/emboj/18.3.743 9927434
    • (1999) EMBO J , vol.18 , pp. 743
    • Schoenhals, G.J.1    Krishna, R.M.2    Grandea, A.G.3
  • 22
    • 0033046472 scopus 로고    scopus 로고
    • Immunodominance in major histocompatibility complex class I-restricted T lymphocyte responses
    • 10.1146/annurev.immunol.17.1.51. 10358753
    • Immunodominance in major histocompatibility complex class I-restricted T lymphocyte responses. JW Yewdell JR Bennink, Annu Rev Immunol 1999 17 51 88 10.1146/annurev.immunol.17.1.51 10358753
    • (1999) Annu Rev Immunol , vol.17 , pp. 51-88
    • Yewdell, J.W.1    Bennink, J.R.2
  • 23
    • 33746132748 scopus 로고    scopus 로고
    • A consensus epitope prediction approach identifies the breadth of murine T(CD8+)-cell responses to vaccinia virus
    • 10.1038/nbt1215. 16767078
    • A consensus epitope prediction approach identifies the breadth of murine T(CD8+)-cell responses to vaccinia virus. M Moutaftsi B Peters V Pasquetto DC Tscharke J Sidney HH Bui H Grey A Sette, Nat Biotechnol 2006 24 817 819 10.1038/nbt1215 16767078
    • (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
  • 24
    • 30544452130 scopus 로고    scopus 로고
    • Have we cut ourselves too short in mapping CTL epitopes?
    • 10.1016/j.it.2005.11.001. 16297661
    • Have we cut ourselves too short in mapping CTL epitopes? SR Burrows J Rossjohn J McCluskey, Trends Immunol 2006 27 11 16 10.1016/j.it.2005.11.001 16297661
    • (2006) Trends Immunol , vol.27 , pp. 11-16
    • Burrows, S.R.1    Rossjohn, J.2    McCluskey, J.3
  • 26
    • 0025155682 scopus 로고
    • Cellular peptide composition governed by major histocompatibility complex class i molecules
    • 10.1038/348248a0. 2234092
    • Cellular peptide composition governed by major histocompatibility complex class I molecules. K Falk O Rotzschke HG Rammensee, Nature 1990 348 248 251 10.1038/348248a0 2234092
    • (1990) Nature , vol.348 , pp. 248-251
    • Falk, K.1    Rotzschke, O.2    Rammensee, H.G.3
  • 29
    • 0025977356 scopus 로고
    • Expression and deletion analysis of the Trypanosoma brucei rhodesiense cysteine protease in Escherichia coli
    • 1997411
    • Expression and deletion analysis of the Trypanosoma brucei rhodesiense cysteine protease in Escherichia coli. EG Pamer CE Davis M So, Infect Immun 1991 59 1074 1078 1997411
    • (1991) Infect Immun , vol.59 , pp. 1074-1078
    • Pamer, E.G.1    Davis, C.E.2    So, M.3
  • 31
    • 2942524864 scopus 로고
    • Prediction of major histocompatibility complex binding regions of protein antigens by sequence pattern analysis
    • 10.1073/pnas.86.9.3296. 2717617
    • Prediction of major histocompatibility complex binding regions of protein antigens by sequence pattern analysis. A Sette S Buus E Appella JA Smith R Chesnut C Miles SM Colon HM Grey, Proc Natl Acad Sci U S A 1989 86 3296 3300 10.1073/pnas.86.9.3296 2717617
    • (1989) Proc Natl Acad Sci U S A , 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
  • 32
    • 0029066338 scopus 로고
    • Two novel T cell epitope prediction algorithms based on MHC-binding motifs; Comparison of predicted and published epitopes from Mycobacterium tuberculosis and HIV protein sequences
    • 10.1016/0264-410X(94)00014-E. 7483779
    • Two novel T cell epitope prediction algorithms based on MHC-binding motifs; comparison of predicted and published epitopes from Mycobacterium tuberculosis and HIV protein sequences. GE Meister CG Roberts JA Berzofsky AS De Groot, Vaccine 1995 13 581 591 10.1016/0264-410X(94)00014-E 7483779
    • (1995) Vaccine , vol.13 , pp. 581-591
    • Meister, G.E.1    Roberts, C.G.2    Berzofsky, J.A.3    De Groot, A.S.4
  • 33
    • 0028052724 scopus 로고
    • Scheme for ranking potential HLA-A2 binding peptides based on independent binding of individual peptide side-chains
    • 8254189
    • Scheme for ranking potential HLA-A2 binding peptides based on independent binding of individual peptide side-chains. KC Parker MA Bednarek JE Coligan, J Immunol 1994 152 163 175 8254189
    • (1994) J Immunol , vol.152 , pp. 163-175
    • Parker, K.C.1    Bednarek, M.A.2    Coligan, J.E.3
  • 34
    • 9444240941 scopus 로고    scopus 로고
    • 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
    • 10.1002/eji.1830260836. 8765039
    • 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. A Stryhn LO Pedersen T Romme CB Holm A Holm S Buus, Eur J Immunol 1996 26 1911 1918 10.1002/eji.1830260836 8765039
    • (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
  • 35
    • 0032210911 scopus 로고    scopus 로고
    • Prediction of well-conserved HIV-1 ligands using a matrix-based algorithm, EpiMatrix
    • 10.1016/S0264-410X(98)00173-X. 9795396
    • Prediction of well-conserved HIV-1 ligands using a matrix-based algorithm, EpiMatrix. JR Schafer BM Jesdale JA George NM Kouttab AS De Groot, Vaccine 1998 16 1880 1884 10.1016/S0264-410X(98)00173-X 9795396
    • (1998) Vaccine , vol.16 , pp. 1880-1884
    • Schafer, J.R.1    Jesdale, B.M.2    George, J.A.3    Kouttab, N.M.4    De Groot, A.S.5
  • 37
    • 0036727207 scopus 로고    scopus 로고
    • Prediction of MHC class i binding peptides using profile motifs
    • 10.1016/S0198-8859(02)00432-9. 12175724
    • Prediction of MHC class I binding peptides using profile motifs. PA Reche JP Glutting EL Reinherz, Hum Immunol 2002 63 701 709 10.1016/S0198-8859(02) 00432-9 12175724
    • (2002) Hum Immunol , vol.63 , pp. 701-709
    • Reche, P.A.1    Glutting, J.P.2    Reinherz, E.L.3
  • 38
    • 2442499729 scopus 로고    scopus 로고
    • Improved prediction of MHC class i and class II epitopes using a novel Gibbs sampling approach
    • 10.1093/bioinformatics/bth100. 14962912
    • Improved prediction of MHC class I and class II epitopes using a novel Gibbs sampling approach. M Nielsen C Lundegaard P Worning CS Hvid K Lamberth S Buus S Brunak O Lund, Bioinformatics 2004 20 1388 1397 10.1093/bioinformatics/ bth100 14962912
    • (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
  • 39
    • 25444476693 scopus 로고    scopus 로고
    • Generating quantitative models describing the sequence specificity of biological processes with the stabilized matrix method
    • 10.1186/1471-2105-6-132. 15927070
    • Generating quantitative models describing the sequence specificity of biological processes with the stabilized matrix method. B Peters A Sette, BMC Bioinformatics 2005 6 132 10.1186/1471-2105-6-132 15927070
    • (2005) BMC Bioinformatics , vol.6 , pp. 132
    • Peters, B.1    Sette, A.2
  • 41
    • 42549105195 scopus 로고    scopus 로고
    • Evaluation of MHC class i peptide binding prediction servers: Applications for vaccine research
    • 10.1186/1471-2172-9-8. 18366636
    • Evaluation of MHC class I peptide binding prediction servers: applications for vaccine research. HH Lin S Ray S Tongchusak EL Reinherz V Brusic, BMC Immunol 2008 9 8 10.1186/1471-2172-9-8 18366636
    • (2008) BMC Immunol , vol.9 , pp. 8
    • Lin, H.H.1    Ray, S.2    Tongchusak, S.3    Reinherz, E.L.4    Brusic, V.5
  • 43
    • 0029096589 scopus 로고
    • Prediction of binding to MHC class i molecules
    • 10.1016/0022-1759(95)00111-M. 7561128
    • Prediction of binding to MHC class I molecules. HP Adams JA Koziol, J Immunol Methods 1995 185 181 190 10.1016/0022-1759(95)00111-M 7561128
    • (1995) J Immunol Methods , vol.185 , pp. 181-190
    • Adams, H.P.1    Koziol, J.A.2
  • 44
    • 0001790787 scopus 로고
    • Prediction of MHC binding peptides using artificial neural networks
    • Amsterdam: IOS Press Stonier RJ, Yu XS
    • Prediction of MHC binding peptides using artificial neural networks. V Brusic G Rudy LC Harrison, Complex systems: mechanism of adaptation Amsterdam: IOS Press, Stonier RJ, Yu XS, 1994 253 260
    • (1994) Complex Systems: Mechanism of Adaptation , pp. 253-260
    • Brusic, V.1    Rudy, G.2    Harrison, L.C.3
  • 45
    • 10744222046 scopus 로고    scopus 로고
    • Sensitive quantitative predictions of peptide-MHC binding by a 'Query by Committee' artificial neural network approach
    • 10.1034/j.1399-0039.2003.00112.x. 14617044
    • Sensitive quantitative predictions of peptide-MHC binding by a 'Query by Committee' artificial neural network approach. S Buus SL Lauemoller P Worning C Kesmir T Frimurer S Corbet A Fomsgaard J Hilden A Holm S Brunak, Tissue Antigens 2003 62 378 384 10.1034/j.1399-0039.2003.00112.x 14617044
    • (2003) Tissue Antigens , vol.62 , pp. 378-384
    • Buus, S.1    Lauemoller, S.L.2    Worning, P.3    Kesmir, C.4    Frimurer, T.5    Corbet, S.6    Fomsgaard, A.7    Hilden, J.8    Holm, A.9    Brunak, S.10
  • 46
    • 0031576987 scopus 로고    scopus 로고
    • Two complementary methods for predicting peptides binding major histocompatibility complex molecules
    • 10.1006/jmbi.1997.0937. 9150410
    • Two complementary methods for predicting peptides binding major histocompatibility complex molecules. K Gulukota J Sidney A Sette C DeLisi, J Mol Biol 1997 267 1258 1267 10.1006/jmbi.1997.0937 9150410
    • (1997) J Mol Biol , vol.267 , pp. 1258-1267
    • Gulukota, K.1    Sidney, J.2    Sette, A.3    Delisi, C.4
  • 47
    • 0037407113 scopus 로고    scopus 로고
    • Reliable prediction of T-cell epitopes using neural networks with novel sequence representations
    • 10.1110/ps.0239403. 12717023
    • Reliable prediction of T-cell epitopes using neural networks with novel sequence representations. M Nielsen C Lundegaard P Worning SL Lauemøller K Lamberth S Buus S Brunak O Lund, Protein Sci 2003 12 1007 1017 10.1110/ps.0239403 12717023
    • (2003) Protein Sci , vol.12 , pp. 1007-1017
    • Nielsen, M.1    Lundegaard, C.2    Worning, P.3    Lauemøller, S.L.4    Lamberth, K.5    Buus, S.6    Brunak, S.7    Lund, O.8
  • 48
    • 33747839161 scopus 로고    scopus 로고
    • SVMHC: A server for prediction of MHC-binding peptides
    • 10.1093/nar/gkl284. 16844990
    • SVMHC: a server for prediction of MHC-binding peptides. P Dönnes O Kohlbacher, Nucleic Acids Res 2006 34 194 W197 10.1093/nar/gkl284 16844990
    • (2006) Nucleic Acids Res , vol.34
    • Dönnes, P.1    Kohlbacher, O.2
  • 50
    • 13844281356 scopus 로고    scopus 로고
    • A roadmap for the immunomics of category A-C pathogens
    • 10.1016/j.immuni.2005.01.009. 15773067
    • A roadmap for the immunomics of category A-C pathogens. A Sette W Fleri B Peters M Sathiamurthy HH Bui S Wilson, Immunity 2005 22 155 161 10.1016/j.immuni.2005.01.009 15773067
    • (2005) Immunity , vol.22 , pp. 155-161
    • Sette, A.1    Fleri, W.2    Peters, B.3    Sathiamurthy, M.4    Bui, H.H.5    Wilson, S.6
  • 51
    • 77953496862 scopus 로고    scopus 로고
    • Major histocompatibility complex class i binding predictions as a tool in epitope discovery
    • 10.1111/j.1365-2567.2010.03300.x. 20518827
    • Major histocompatibility complex class I binding predictions as a tool in epitope discovery. C Lundegaard O Lund S Buus M Nielsen, Immunology 2010 130 309 318 10.1111/j.1365-2567.2010.03300.x 20518827
    • (2010) Immunology , vol.130 , pp. 309-318
    • Lundegaard, C.1    Lund, O.2    Buus, S.3    Nielsen, M.4
  • 52
    • 48449106045 scopus 로고    scopus 로고
    • NetMHC-3.0: Accurate web accessible predictions of human, mouse and monkey MHC class i affinities for peptides of length 8-11
    • 10.1093/nar/gkn202. 18463140
    • NetMHC-3.0: accurate web accessible predictions of human, mouse and monkey MHC class I affinities for peptides of length 8-11. C Lundegaard K Lamberth M Harndahl S Buus O Lund M Nielsen, Nucleic Acids Res 2008 36 509 W512 10.1093/nar/gkn202 18463140
    • (2008) Nucleic Acids Res , vol.36
    • Lundegaard, C.1    Lamberth, K.2    Harndahl, M.3    Buus, S.4    Lund, O.5    Nielsen, M.6
  • 53
    • 36949034073 scopus 로고    scopus 로고
    • Modeling the adaptive immune system: Predictions and simulations
    • 10.1093/bioinformatics/btm471. 18045832
    • Modeling the adaptive immune system: predictions and simulations. C Lundegaard O Lund C Kesmir S Brunak M Nielsen, Bioinformatics 2007 23 3265 3275 10.1093/bioinformatics/btm471 18045832
    • (2007) Bioinformatics , vol.23 , pp. 3265-3275
    • Lundegaard, C.1    Lund, O.2    Kesmir, C.3    Brunak, S.4    Nielsen, M.5
  • 55
    • 44349146151 scopus 로고    scopus 로고
    • Accurate approximation method for prediction of class i MHC affinities for peptides of length 8, 10 and 11 using prediction tools trained on 9mers
    • 10.1093/bioinformatics/btn128. 18413329
    • Accurate approximation method for prediction of class I MHC affinities for peptides of length 8, 10 and 11 using prediction tools trained on 9mers. C Lundegaard O Lund M Nielsen, Bioinformatics 2008 24 1397 1398 10.1093/bioinformatics/btn128 18413329
    • (2008) Bioinformatics , vol.24 , pp. 1397-1398
    • Lundegaard, C.1    Lund, O.2    Nielsen, M.3
  • 56
    • 42949139524 scopus 로고    scopus 로고
    • A systematic assessment of MHC class II peptide binding predictions and evaluation of a consensus approach
    • 10.1371/journal.pcbi.1000048. 18389056
    • A systematic assessment of MHC class II peptide binding predictions and evaluation of a consensus approach. P Wang J Sidney C Dow B Mothé A Sette B Peters, PLoS Comput Biol 2008 4 1000048 10.1371/journal.pcbi.1000048 18389056
    • (2008) PLoS Comput Biol , vol.4 , pp. 51000048
    • Wang, P.1    Sidney, J.2    Dow, C.3    Mothé, B.4    Sette, A.5    Peters, B.6
  • 59
    • 1642407844 scopus 로고    scopus 로고
    • Identifiying human MHC supertypes using bioinformatic methods
    • 15034046
    • Identifiying human MHC supertypes using bioinformatic methods. IA Doytchinova P Guan DR Flower, J Immunol 2004 172 4314 4323 15034046
    • (2004) J Immunol , vol.172 , pp. 4314-4323
    • Doytchinova, I.A.1    Guan, P.2    Flower, D.R.3
  • 60
    • 33744940904 scopus 로고    scopus 로고
    • Definition of MHC supertypes through clustering of MHC peptide binding repertoires
    • Berlin: Springer Verlag. full-text
    • Definition of MHC supertypes through clustering of MHC peptide binding repertoires. PA Reche EL Reinherz, Artificial Immune Systems, Proceedings Berlin: Springer Verlag 2004 189 196 full-text
    • (2004) Artificial Immune Systems, Proceedings , pp. 189-196
    • Reche, P.A.1    Reinherz, E.L.2
  • 61
    • 44649137451 scopus 로고    scopus 로고
    • Definition of MHC supertypes through clustering of MHC peptide-binding repertoires
    • full-text. 18449999
    • Definition of MHC supertypes through clustering of MHC peptide-binding repertoires. PA Reche EL Reinherz, Methods Mol Biol 2007 409 163 173 full-text 18449999
    • (2007) Methods Mol Biol , vol.409 , pp. 163-173
    • Reche, P.A.1    Reinherz, E.L.2
  • 62
    • 0029933388 scopus 로고    scopus 로고
    • Definition of an HLA-A3-like supermotif demonstrates the overlapping peptide-binding repertoires of common HLA molecules
    • 10.1016/0198-8859(95)00173-5. 8882405
    • Definition of an HLA-A3-like supermotif demonstrates the overlapping peptide-binding repertoires of common HLA molecules. J Sidney HM Grey S Southwood E Celis PA Wentworth MF del Guercio RT Kubo RW Chesnut A Sette, Hum Immunol 1996 45 79 93 10.1016/0198-8859(95)00173-5 8882405
    • (1996) Hum Immunol , vol.45 , pp. 79-93
    • Sidney, J.1    Grey, H.M.2    Southwood, S.3    Celis, E.4    Wentworth, P.A.5    Del Guercio, M.F.6    Kubo, R.T.7    Chesnut, R.W.8    Sette, A.9
  • 63
    • 39649122106 scopus 로고    scopus 로고
    • HLA class i supertypes: A revised and updated classification
    • 10.1186/1471-2172-9-1. 18211710
    • HLA class I supertypes: a revised and updated classification. J Sidney B Peters N Frahm C Brander A Sette, BMC Immunol 2008 9 1 10.1186/1471-2172-9-1 18211710
    • (2008) BMC Immunol , vol.9 , pp. 1
    • Sidney, J.1    Peters, B.2    Frahm, N.3    Brander, C.4    Sette, A.5
  • 64
    • 0028915529 scopus 로고
    • Receptor-ligand interactions measured by an improved spun column chromatography technique. A high efficiency and high throughput size separation method
    • 7537104
    • Receptor-ligand interactions measured by an improved spun column chromatography technique. A high efficiency and high throughput size separation method. S Buus A Stryhn K Winther N Kirkby LO Pedersen, Biochim Biophys Acta 1995 1243 453 460 7537104
    • (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
  • 65
    • 61849124792 scopus 로고    scopus 로고
    • Peptide binding to HLA class i molecules: Homogenous, high-throughput screening, and affinity assays
    • 10.1177/1087057108329453. 19196700
    • Peptide binding to HLA class I molecules: homogenous, high-throughput screening, and affinity assays. M Harndahl S Justesen K Lamberth G Røder M Nielsen S Buus, J Biomol Screen 2009 14 173 180 10.1177/1087057108329453 19196700
    • (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
  • 69
    • 23144455463 scopus 로고    scopus 로고
    • MULTIPRED: A computational system for prediction of promiscuous HLA binding peptides
    • 10.1093/nar/gki452. 15980449
    • MULTIPRED: a computational system for prediction of promiscuous HLA binding peptides. GL Zhang AM Khan KN Srinivasan JT August V Brusic, Nucleic Acids Res 2005 33 172 W179 10.1093/nar/gki452 15980449
    • (2005) Nucleic Acids Res , vol.33
    • Zhang, G.L.1    Khan, A.M.2    Srinivasan, K.N.3    August, J.T.4    Brusic, V.5
  • 70
    • 38849139819 scopus 로고    scopus 로고
    • Efficient peptide-MHC-I binding prediction for alleles with few known binders
    • 10.1093/bioinformatics/btm611. 18083718
    • Efficient peptide-MHC-I binding prediction for alleles with few known binders. L Jacob JP Vert, Bioinformatics 2008 24 358 366 10.1093/bioinformatics/ btm611 18083718
    • (2008) Bioinformatics , vol.24 , pp. 358-366
    • Jacob, L.1    Vert, J.P.2
  • 74
    • 58049217445 scopus 로고    scopus 로고
    • Pan-specific MHC class i predictors: A benchmark of HLA class i pan-specific prediction methods
    • 10.1093/bioinformatics/btn579. 18996943
    • Pan-specific MHC class I predictors: a benchmark of HLA class I pan-specific prediction methods. H Zhang C Lundegaard M Nielsen, Bioinformatics 2009 25 83 89 10.1093/bioinformatics/btn579 18996943
    • (2009) Bioinformatics , vol.25 , pp. 83-89
    • Zhang, H.1    Lundegaard, C.2    Nielsen, M.3
  • 75
    • 9644289334 scopus 로고    scopus 로고
    • The proteasome and MHC class i antigen processing
    • 10.1016/j.bbamcr.2004.10.004. 15571818
    • The proteasome and MHC class I antigen processing. PM Kloetzel, Biochim Biophys Acta 2004 1695 225 233 10.1016/j.bbamcr.2004.10.004 15571818
    • (2004) Biochim Biophys Acta , vol.1695 , pp. 225-233
    • Kloetzel, P.M.1
  • 76
    • 3242771511 scopus 로고    scopus 로고
    • Generation of major histocompatibility complex class i antigens: Functional interplay between proteasomes and TPPII
    • 10.1038/ni1090. 15224091
    • Generation of major histocompatibility complex class I antigens: functional interplay between proteasomes and TPPII. PM Kloetzel, Nat Immunol 2004 5 661 669 10.1038/ni1090 15224091
    • (2004) Nat Immunol , vol.5 , pp. 661-669
    • Kloetzel, P.M.1
  • 77
    • 17844385106 scopus 로고    scopus 로고
    • The role of the proteasome in generating cytotoxic T-cell epitopes: Insights obtained from improved predictions of proteasomal cleavage
    • 10.1007/s00251-005-0781-7. 15744535
    • The role of the proteasome in generating cytotoxic T-cell epitopes: insights obtained from improved predictions of proteasomal cleavage. M Nielsen C Lundegaard O Lund C Kemir, Immunogenetics 2005 57 33 41 10.1007/s00251-005- 0781-7 15744535
    • (2005) Immunogenetics , vol.57 , pp. 33-41
    • Nielsen, M.1    Lundegaard, C.2    Lund, O.3    Kemir, C.4
  • 78
    • 0345291184 scopus 로고    scopus 로고
    • A theoretical approach towards the identification of cleavage-determining amino acid motifs of the 20 S proteasome
    • 10.1006/jmbi.1998.2530. 10047495
    • A theoretical approach towards the identification of cleavage-determining amino acid motifs of the 20 S proteasome. HG Holzhutter C Frommel PM Kloetzel, J. Mol. Biol. 1999 286 1251 1265 10.1006/jmbi.1998.2530 10047495
    • (1999) J. Mol. Biol. , vol.286 , pp. 1251-1265
    • Holzhutter, H.G.1    Frommel, C.2    Kloetzel, P.M.3
  • 79
    • 0033849945 scopus 로고    scopus 로고
    • A kinetic model of vertebrate 20S proteasome accounting for the generation of major proteolytic fragments from oligomeric peptide substrates
    • 10.1016/S0006-3495(00)76374-0. 10968984
    • A kinetic model of vertebrate 20S proteasome accounting for the generation of major proteolytic fragments from oligomeric peptide substrates. HG Holzhutter PM Kloetzel, Biophys J 2000 79 1196 1205 10.1016/S0006-3495(00) 76374-0 10968984
    • (2000) Biophys J , vol.79 , pp. 1196-1205
    • Holzhutter, H.G.1    Kloetzel, P.M.2
  • 81
    • 0035074032 scopus 로고    scopus 로고
    • PAProC: A prediction algorithm for proteasomal cleavages available on the WWW
    • 10.1007/s002510100300. 11345595
    • PAProC: a prediction algorithm for proteasomal cleavages available on the WWW. AK Nussbaum C Kuttler KP Hadeler HG Rammensee H Schild, Immunogenetics 2001 53 87 94 10.1007/s002510100300 11345595
    • (2001) Immunogenetics , vol.53 , pp. 87-94
    • Nussbaum, A.K.1    Kuttler, C.2    Hadeler, K.P.3    Rammensee, H.G.4    Schild, H.5
  • 82
    • 1642495749 scopus 로고    scopus 로고
    • Quantitative analysis of prion-protein degradation by constitutive and immuno-20S proteasomes indicates differences correlated with disease susceptibility
    • 14707082
    • Quantitative analysis of prion-protein degradation by constitutive and immuno-20S proteasomes indicates differences correlated with disease susceptibility. S Tenzer L Stoltze B Schonfisch J Dengjel M Muller S Stevanovic HG Rammensee H Schild, J Immunol 2004 172 1083 1091 14707082
    • (2004) J Immunol , vol.172 , pp. 1083-1091
    • Tenzer, S.1    Stoltze, L.2    Schonfisch, B.3    Dengjel, J.4    Muller, M.5    Stevanovic, S.6    Rammensee, H.G.7    Schild, H.8
  • 83
    • 0036096708 scopus 로고    scopus 로고
    • Prediction of proteasome cleavage motifs by neural networks
    • 10.1093/protein/15.4.287. 11983929
    • Prediction of proteasome cleavage motifs by neural networks. C Kesmir AK Nussbaum H Schild V Detours S Brunak, Protein Eng 2002 15 287 296 10.1093/protein/15.4.287 11983929
    • (2002) Protein Eng , vol.15 , pp. 287-296
    • Kesmir, C.1    Nussbaum, A.K.2    Schild, H.3    Detours, V.4    Brunak, S.5
  • 84
    • 0038350948 scopus 로고    scopus 로고
    • Predicting proteasomal cleavage sites: A comparison of available methods
    • 10.1093/intimm/dxg084. 12807816
    • Predicting proteasomal cleavage sites: a comparison of available methods. P Saxov S Buus S Brunak C Kesmir, Int. Immunol 2003 15 781 787 10.1093/intimm/dxg084 12807816
    • (2003) Int. Immunol , vol.15 , pp. 781-787
    • Saxov, P.1    Buus, S.2    Brunak, S.3    Kesmir, C.4
  • 85
    • 23144433033 scopus 로고    scopus 로고
    • Pcleavage: An SVM based method for prediction of constitutive proteasome and immunoproteasome cleavage sites in antigenic sequences
    • 10.1093/nar/gki587. 15988831
    • Pcleavage: an SVM based method for prediction of constitutive proteasome and immunoproteasome cleavage sites in antigenic sequences. M Bhasin GPS Raghava, Nucleic Acids Research 2005 33 202 W207 10.1093/nar/gki587 15988831
    • (2005) Nucleic Acids Research , vol.33
    • Bhasin, M.1    Raghava, G.P.S.2
  • 86
    • 68549090881 scopus 로고    scopus 로고
    • Computational prediction of the specificities of proteasome interaction with antigen protein
    • 10.1038/cmi.2009.19. 19403064
    • Computational prediction of the specificities of proteasome interaction with antigen protein. T Liu W Liu Z Song C Jiao M Zhu X Wang, Cell Mol Immunol 2009 6 135 142 10.1038/cmi.2009.19 19403064
    • (2009) Cell Mol Immunol , vol.6 , pp. 135-142
    • Liu, T.1    Liu, W.2    Song, Z.3    Jiao, C.4    Zhu, M.5    Wang, X.6
  • 87
    • 0020083498 scopus 로고
    • The meaning and use of the area under a receiver operating characteristic (ROC) curve
    • 7063747
    • The meaning and use of the area under a receiver operating characteristic (ROC) curve. JA Hanley BJ McNeil, Radiology 1982 143 29 36 7063747
    • (1982) Radiology , vol.143 , pp. 29-36
    • Hanley, J.A.1    McNeil, B.J.2
  • 88
    • 39149096295 scopus 로고    scopus 로고
    • Precise score for the prediction of peptides cleaved by the proteasome
    • 10.1093/bioinformatics/btm616. 18216070
    • Precise score for the prediction of peptides cleaved by the proteasome. I Ginodi T Vider-Shalit L Tsaban Y Louzoun, Bioinformatics 2008 24 477 483 10.1093/bioinformatics/btm616 18216070
    • (2008) Bioinformatics , vol.24 , pp. 477-483
    • Ginodi, I.1    Vider-Shalit, T.2    Tsaban, L.3    Louzoun, Y.4
  • 90
    • 0034802622 scopus 로고    scopus 로고
    • Efficient MHC class I-independent amino-terminal trimming of epitope precursor peptides in the endoplasmic reticulum
    • 10.1016/S1074-7613(01)00203-5. 11567636
    • Efficient MHC class I-independent amino-terminal trimming of epitope precursor peptides in the endoplasmic reticulum. D Fruci G Niedermann RH Butler PM van Endert, Immunity 2001 15 467 476 10.1016/S1074-7613(01)00203-5 11567636
    • (2001) Immunity , vol.15 , pp. 467-476
    • Fruci, D.1    Niedermann, G.2    Butler, R.H.3    Van Endert, P.M.4
  • 91
    • 0041589474 scopus 로고    scopus 로고
    • Identifying MHC class i epitopes by predicting the TAP transport efficiency of epitope precursors
    • 12902473
    • Identifying MHC class I epitopes by predicting the TAP transport efficiency of epitope precursors. B Peters S Bulik R Tampe PM Van Endert HG Holzhütter, J Immunol 2003 171 1741 1749 12902473
    • (2003) J Immunol , vol.171 , pp. 1741-1749
    • Peters, B.1    Bulik, S.2    Tampe, R.3    Van Endert, P.M.4    Holzhütter, H.G.5
  • 92
    • 70449416038 scopus 로고    scopus 로고
    • Prediction of MHC-peptide binding: A systematic and comprehensive overview
    • 10.2174/138161209789105162. 19860671
    • Prediction of MHC-peptide binding: a systematic and comprehensive overview. EM Lafuente PA Reche, Curr Pharm Des 2009 15 3209 3220 10.2174/138161209789105162 19860671
    • (2009) Curr Pharm des , vol.15 , pp. 3209-3220
    • Lafuente, E.M.1    Reche, P.A.2
  • 93
    • 77949368187 scopus 로고    scopus 로고
    • Quantitative modeling of peptide binding to TAP using support vector machine
    • 10.1002/prot.22535. 19705485
    • Quantitative modeling of peptide binding to TAP using support vector machine. CM Diez-Rivero B Chenlo P Zuluaga PA Reche, Proteins 2010 78 63 72 10.1002/prot.22535 19705485
    • (2010) Proteins , vol.78 , pp. 63-72
    • Diez-Rivero, C.M.1    Chenlo, B.2    Zuluaga, P.3    Reche, P.A.4
  • 95
    • 0033372442 scopus 로고    scopus 로고
    • The transporter associated with antigen processing TAP: Structure and function
    • 10.1016/S0014-5793(99)01676-2. 10618487
    • The transporter associated with antigen processing TAP: structure and function. B Lankat-Buttgereit R Tampe, FEBS Lett 1999 464 108 112 10.1016/S0014-5793(99)01676-2 10618487
    • (1999) FEBS Lett , vol.464 , pp. 108-112
    • Lankat-Buttgereit, B.1    Tampe, R.2
  • 96
    • 48049122834 scopus 로고    scopus 로고
    • Differential tapasin dependence of MHC class i molecules correlates with conformational changes upon peptide dissociation: A molecular dynamics simulation study
    • 10.1016/j.molimm.2008.06.009. 18639935
    • Differential tapasin dependence of MHC class I molecules correlates with conformational changes upon peptide dissociation: a molecular dynamics simulation study. F Sieker TP Straatsma S Springer M Zacharias, Mol Immunol 2008 45 3714 3722 10.1016/j.molimm.2008.06.009 18639935
    • (2008) Mol Immunol , vol.45 , pp. 3714-3722
    • Sieker, F.1    Straatsma, T.P.2    Springer, S.3    Zacharias, M.4
  • 97
    • 33751205625 scopus 로고    scopus 로고
    • The validity of predicted T-cell epitopes
    • 10.1016/j.tibtech.2006.10.001. 17045685
    • The validity of predicted T-cell epitopes. C Lundegaard M Nielsen O Lund, Trends Biotechnol 2006 24 537 538 10.1016/j.tibtech.2006.10.001 17045685
    • (2006) Trends Biotechnol , vol.24 , pp. 537-538
    • Lundegaard, C.1    Nielsen, M.2    Lund, O.3
  • 98
    • 77953149616 scopus 로고    scopus 로고
    • NetCTLpan: Pan-specific MHC class i pathway epitope predictions
    • 10.1007/s00251-010-0441-4. 20379710
    • NetCTLpan: pan-specific MHC class I pathway epitope predictions. T Stranzl MV Larsen C Lundegaard M Nielsen, Immunogenetics 2010 62 357 368 10.1007/s00251-010-0441-4 20379710
    • (2010) Immunogenetics , vol.62 , pp. 357-368
    • Stranzl, T.1    Larsen, M.V.2    Lundegaard, C.3    Nielsen, M.4
  • 100
    • 23844528191 scopus 로고    scopus 로고
    • An integrative approach to CTL epitope prediction: A combined algorithm integrating MHC class i binding, TAP transport efficiency, and proteasomal cleavage predictions
    • 10.1002/eji.200425811. 15997466
    • An integrative approach to CTL epitope prediction: a combined algorithm integrating MHC class I binding, TAP transport efficiency, and proteasomal cleavage predictions. MV Larsen C Lundegaard K Lamberth S Buus S Brunak O Lund M Nielsen, Eur J Immunol 2005 35 2295 2303 10.1002/eji.200425811 15997466
    • (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
  • 102
    • 33645472169 scopus 로고    scopus 로고
    • EpiJen: A server for multistep T cell epitope prediction
    • 10.1186/1471-2105-7-131. 16533401
    • EpiJen: a server for multistep T cell epitope prediction. IA Doytchinova P Guan DR Flower, BMC Bioinformatics 2006 7 131 10.1186/1471-2105-7-131 16533401
    • (2006) BMC Bioinformatics , vol.7 , pp. 131
    • Doytchinova, I.A.1    Guan, P.2    Flower, D.R.3
  • 103
    • 23644443226 scopus 로고    scopus 로고
    • Integrated modeling of the major events in the MHC class i antigen processing pathway
    • 10.1110/ps.051352405. 15987883
    • Integrated modeling of the major events in the MHC class I antigen processing pathway. P Donnes O Kohlbacher, Protein Sci 2005 14 2132 2140 10.1110/ps.051352405 15987883
    • (2005) Protein Sci , vol.14 , pp. 2132-2140
    • Donnes, P.1    Kohlbacher, O.2
  • 104
    • 38049169092 scopus 로고    scopus 로고
    • Large-scale validation of methods for cytotoxic T-lymphocyte epitope prediction
    • 10.1186/1471-2105-8-424. 17973982
    • Large-scale validation of methods for cytotoxic T-lymphocyte epitope prediction. MV Larsen C Lundegaard K Lamberth S Buus O Lund M Nielsen, BMC Bioinformatics 2007 8 424 10.1186/1471-2105-8-424 17973982
    • (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
  • 105
    • 44449117504 scopus 로고    scopus 로고
    • Broadly immunogenic HLA class i supertype-restricted elite CTL epitopes recognized in a diverse population infected with different HIV-1 subtypes
    • 18354235
    • Broadly immunogenic HLA class I supertype-restricted elite CTL epitopes recognized in a diverse population infected with different HIV-1 subtypes. CL Perez MV Larsen R Gustafsson MM Norstrom A Atlas DF Nixon M Nielsen O Lund AC Karlsson, J Immunol 2008 180 5092 5100 18354235
    • (2008) J Immunol , vol.180 , pp. 5092-5100
    • Perez, C.L.1    Larsen, M.V.2    Gustafsson, R.3    Norstrom, M.M.4    Atlas, A.5    Nixon, D.F.6    Nielsen, M.7    Lund, O.8    Karlsson, A.C.9
  • 107
    • 0017196203 scopus 로고
    • Cell mediated immunity and the inflammatory system
    • 10.1016/S0046-8177(76)80036-6. 773808
    • Cell mediated immunity and the inflammatory system. S Cohen, Human pathology 1976 7 249 10.1016/S0046-8177(76)80036-6 773808
    • (1976) Human Pathology , vol.7 , pp. 249
    • Cohen, S.1
  • 108
    • 0030806054 scopus 로고    scopus 로고
    • Antigen presentation by MHC class II molecules: Invariant chain function, protein trafficking, and the molecular basis of diverse determinant capture
    • 10.1016/S0198-8859(97)00078-5. 9297534
    • Antigen presentation by MHC class II molecules: invariant chain function, protein trafficking, and the molecular basis of diverse determinant capture. F Castellino G Zhong RN Germain, Hum Immunol 1997 54 159 169 10.1016/S0198- 8859(97)00078-5 9297534
    • (1997) Hum Immunol , vol.54 , pp. 159-169
    • Castellino, F.1    Zhong, G.2    Germain, R.N.3
  • 109
    • 77953520516 scopus 로고    scopus 로고
    • MHC Class II epitope predictive algorithms
    • 10.1111/j.1365-2567.2010.03268.x. 20408898
    • MHC Class II epitope predictive algorithms. M Nielsen O Lund S Buus C Lundegaard, Immunology 2010 130 319 328 10.1111/j.1365-2567.2010.03268.x 20408898
    • (2010) Immunology , vol.130 , pp. 319-328
    • Nielsen, M.1    Lund, O.2    Buus, S.3    Lundegaard, C.4
  • 110
    • 0028348369 scopus 로고
    • Crystal structure of the human class II MHC protein HLA-DR1 complexed with an influenza virus peptide
    • 10.1038/368215a0. 8145819
    • Crystal structure of the human class II MHC protein HLA-DR1 complexed with an influenza virus peptide. LJ Stern JH Brown TS Jardetzky JC Gorga RG Urban JL Strominger DC Wiley, Nature 1994 368 215 221 10.1038/368215a0 8145819
    • (1994) Nature , vol.368 , pp. 215-221
    • Stern, L.J.1    Brown, J.H.2    Jardetzky, T.S.3    Gorga, J.C.4    Urban, R.G.5    Strominger, J.L.6    Wiley, D.C.7
  • 111
    • 0026042333 scopus 로고
    • Sequence analysis of peptides bound to MHC class II molecules
    • 10.1038/353622a0. 1656276
    • Sequence analysis of peptides bound to MHC class II molecules. AY Rudensky P Preston-Hurlburt SC Hong A Barlow CA Janeway, Nature 1991 353 622 627 10.1038/353622a0 1656276
    • (1991) Nature , vol.353 , pp. 622-627
    • Rudensky, A.Y.1    Preston-Hurlburt, P.2    Hong, S.C.3    Barlow, A.4    Janeway, C.A.5
  • 112
    • 0027937713 scopus 로고
    • Precise prediction of major histocompatibility complex class II-peptide interaction based on peptide side chain scanning
    • 10.1084/jem.180.6.2353. 7964508
    • Precise prediction of major histocompatibility complex class II-peptide interaction based on peptide side chain scanning. J Hammer E Bono F Gallazzi C Belunis Z Nagy F Sinigaglia, J Exp Med 1994 180 2353 2358 10.1084/jem.180.6.2353 7964508
    • (1994) J Exp Med , vol.180 , pp. 2353-2358
    • Hammer, J.1    Bono, E.2    Gallazzi, F.3    Belunis, C.4    Nagy, Z.5    Sinigaglia, F.6
  • 113
    • 0036137241 scopus 로고    scopus 로고
    • ProPred: Prediction of HLA-DR binding sites
    • 10.1093/bioinformatics/17.12.1236. 11751237
    • ProPred: prediction of HLA-DR binding sites. H Singh GP Raghava, Bioinformatics 2001 17 1236 1237 10.1093/bioinformatics/17.12.1236 11751237
    • (2001) Bioinformatics , vol.17 , pp. 1236-1237
    • Singh, H.1    Raghava, G.P.2
  • 114
    • 1342288007 scopus 로고    scopus 로고
    • SVM based method for predicting HLA-DRB1*0401 binding peptides in an antigen sequence
    • 10.1093/bioinformatics/btg424. 14960470
    • SVM based method for predicting HLA-DRB1*0401 binding peptides in an antigen sequence. M Bhasin GP Raghava, Bioinformatics 2004 20 421 423 10.1093/bioinformatics/btg424 14960470
    • (2004) Bioinformatics , vol.20 , pp. 421-423
    • Bhasin, M.1    Raghava, G.P.2
  • 115
    • 0035338992 scopus 로고    scopus 로고
    • Naturally processed HLA class II peptides reveal highly conserved immunogenic flanking region sequence preferences that reflect antigen processing rather than peptide-MHC interactions
    • 11359828
    • Naturally processed HLA class II peptides reveal highly conserved immunogenic flanking region sequence preferences that reflect antigen processing rather than peptide-MHC interactions. AJ Godkin KJ Smith A Willis MV Tejada-Simon J Zhang T Elliott AV Hill, J Immunol 2001 166 6720 6727 11359828
    • (2001) J Immunol , vol.166 , pp. 6720-6727
    • Godkin, A.J.1    Smith, K.J.2    Willis, A.3    Tejada-Simon, M.V.4    Zhang, J.5    Elliott, T.6    Hill, A.V.7
  • 116
    • 33751020273 scopus 로고    scopus 로고
    • Peptide length-based prediction of peptide-MHC class II binding
    • 10.1093/bioinformatics/btl479. 17000752
    • Peptide length-based prediction of peptide-MHC class II binding. ST Chang D Ghosh DE Kirschner JJ Linderman, Bioinformatics 2006 22 2761 2767 10.1093/bioinformatics/btl479 17000752
    • (2006) Bioinformatics , vol.22 , pp. 2761-2767
    • Chang, S.T.1    Ghosh, D.2    Kirschner, D.E.3    Linderman, J.J.4
  • 117
    • 34547778364 scopus 로고    scopus 로고
    • Prediction of MHC class II binding affinity using SMM-align, a novel stabilization matrix alignment method
    • 10.1186/1471-2105-8-238. 17608956
    • Prediction of MHC class II binding affinity using SMM-align, a novel stabilization matrix alignment method. M Nielsen C Lundegaard O Lund, BMC Bioinformatics 2007 8 238 10.1186/1471-2105-8-238 17608956
    • (2007) BMC Bioinformatics , vol.8 , pp. 238
    • Nielsen, M.1    Lundegaard, C.2    Lund, O.3
  • 118
    • 57649174707 scopus 로고    scopus 로고
    • Evaluation of MHC-II peptide binding prediction servers: Applications for vaccine research
    • 10.1186/1471-2105-9-S12-S22. 19091022
    • Evaluation of MHC-II peptide binding prediction servers: applications for vaccine research. HH Lin GL Zhang S Tongchusak EL Reinherz V Brusic, BMC Bioinformatics 2008 9 Suppl 12 22 10.1186/1471-2105-9-S12-S22 19091022
    • (2008) BMC Bioinformatics , vol.9 , Issue.SUPPL. 12 , pp. 1922
    • Lin, H.H.1    Zhang, G.L.2    Tongchusak, S.3    Reinherz, E.L.4    Brusic, V.5
  • 119
    • 70449359806 scopus 로고    scopus 로고
    • NN-align. An artificial neural network-based alignment algorithm for MHC class II peptide binding prediction
    • 10.1186/1471-2105-10-296. 19765293
    • NN-align. An artificial neural network-based alignment algorithm for MHC class II peptide binding prediction. M Nielsen O Lund, BMC Bioinformatics 2009 10 296 10.1186/1471-2105-10-296 19765293
    • (2009) BMC Bioinformatics , vol.10 , pp. 296
    • Nielsen, M.1    Lund, O.2
  • 120
    • 48249083459 scopus 로고    scopus 로고
    • Quantitative predictions of peptide binding to any HLA-DR molecule of known sequence: NetMHCIIpan
    • 10.1371/journal.pcbi.1000107. 18604266
    • Quantitative predictions of peptide binding to any HLA-DR molecule of known sequence: NetMHCIIpan. M Nielsen C Lundegaard T Blicher B Peters A Sette S Justesen S Buus O Lund, PLoS Comput Biol 2008 4 1000107 10.1371/journal.pcbi. 1000107 18604266
    • (2008) PLoS Comput Biol , vol.4 , pp. 51000107
    • Nielsen, M.1    Lundegaard, C.2    Blicher, T.3    Peters, B.4    Sette, A.5    Justesen, S.6    Buus, S.7    Lund, O.8
  • 121
    • 77952762373 scopus 로고    scopus 로고
    • CD4+ T cell epitope discovery and rational vaccine design
    • 10.1007/s00005-010-0067-0. 20155490
    • CD4+ T cell epitope discovery and rational vaccine design. DS Rosa SP Ribeiro E Cunha-Neto, Arch Immunol Ther Exp (Warsz) 2010 58 121 130 10.1007/s00005-010-0067-0 20155490
    • (2010) Arch Immunol Ther Exp (Warsz) , vol.58 , pp. 121-130
    • Rosa, D.S.1    Ribeiro, S.P.2    Cunha-Neto, E.3
  • 122
    • 60349097841 scopus 로고    scopus 로고
    • Th1 cell reactivity and HLA-DR binding prediction for promiscuous recognition of MPT63 (Rv1926c), a major secreted protein of Mycobacterium tuberculosis
    • 10.1111/j.1365-3083.2008.02221.x. 19281533
    • Th1 cell reactivity and HLA-DR binding prediction for promiscuous recognition of MPT63 (Rv1926c), a major secreted protein of Mycobacterium tuberculosis. AS Mustafa, Scand J Immunol 2009 69 213 222 10.1111/j.1365-3083. 2008.02221.x 19281533
    • (2009) Scand J Immunol , vol.69 , pp. 213-222
    • Mustafa, A.S.1
  • 124
    • 58149165030 scopus 로고    scopus 로고
    • A mathematical framework for the selection of an optimal set of peptides for epitope-based vaccines
    • 10.1371/journal.pcbi.1000246. 19112482
    • A mathematical framework for the selection of an optimal set of peptides for epitope-based vaccines. NC Toussaint P Dönnes O Kohlbacher, PLoS Comput Biol 2008 4 1000246 10.1371/journal.pcbi.1000246 19112482
    • (2008) PLoS Comput Biol , vol.4 , pp. 51000246
    • Toussaint, N.C.1    Dönnes, P.2    Kohlbacher, O.3
  • 125
    • 67849111553 scopus 로고    scopus 로고
    • OptiTope - A web server for the selection of an optimal set of peptides for epitope-based vaccines
    • 10.1093/nar/gkp293. 19420066
    • OptiTope - a web server for the selection of an optimal set of peptides for epitope-based vaccines. NC Toussaint O Kohlbacher, Nucleic Acids Res 2009 37 617 W622 10.1093/nar/gkp293 19420066
    • (2009) Nucleic Acids Res , vol.37
    • Toussaint, N.C.1    Kohlbacher, O.2
  • 127
  • 128
    • 77954484969 scopus 로고    scopus 로고
    • Interdisciplinary Analysis of HIV-Specific CD8+ T Cell Responses against Variant Epitopes Reveals Restricted TCR Promiscuity
    • 20363973
    • Interdisciplinary Analysis of HIV-Specific CD8+ T Cell Responses against Variant Epitopes Reveals Restricted TCR Promiscuity. I Hoof CL Pérez M Buggert RK Gustafsson M Nielsen O Lund AC Karlsson, J Immunol 2010 20363973
    • (2010) J Immunol
    • Hoof, I.1    Pérez, C.L.2    Buggert, M.3    Gustafsson, R.K.4    Nielsen, M.5    Lund, O.6    Karlsson, A.C.7
  • 129
    • 61449514317 scopus 로고    scopus 로고
    • MHC motif viewer
    • 10.1007/s00251-008-0330-2. 18766337
    • MHC motif viewer. N Rapin I Hoof O Lund M Nielsen, Immunogenetics 2008 60 759 765 10.1007/s00251-008-0330-2 18766337
    • (2008) Immunogenetics , vol.60 , pp. 759-765
    • Rapin, N.1    Hoof, I.2    Lund, O.3    Nielsen, M.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.