-
2
-
-
83155180577
-
Toward more accurate panspecific MHC-peptide binding prediction: a review of current methods and tools
-
Zhang L, Udaka K, Mamitsuka H, Zhu S: Toward more accurate panspecific MHC-peptide binding prediction: a review of current methods and tools. Briefings in bioinformatics 2012; 13(3):350-364.
-
(2012)
Briefings in bioinformatics
, vol.13
, Issue.3
, pp. 350-364
-
-
Zhang, L.1
Udaka, K.2
Mamitsuka, H.3
Zhu, S.4
-
4
-
-
34547778364
-
Prediction of MHC class II binding affinity using SMM-align, a novel stabilization matrix alignment method
-
Nielsen M, Lundegaard C, Lund O: Prediction of MHC class II binding affinity using SMM-align, a novel stabilization matrix alignment method. BMC bioinformatics 2007; 8:238.
-
(2007)
BMC bioinformatics
, vol.8
, pp. 238
-
-
Nielsen, M.1
Lundegaard, C.2
Lund, O.3
-
5
-
-
70449359806
-
NN-align. An artificial neural network-based alignment algorithm for MHC class II peptide binding prediction
-
Nielsen M, Lund O: NN-align. An artificial neural network-based alignment algorithm for MHC class II peptide binding prediction. BMC bioinformatics 2009; 10:296.
-
(2009)
BMC bioinformatics
, vol.10
, pp. 296
-
-
Nielsen, M.1
Lund, O.2
-
6
-
-
77649176463
-
Prediction of the binding affinities of peptides to class II MHC using a regularized thermodynamic model
-
Bordner AJ, Mittelmann HD: Prediction of the binding affinities of peptides to class II MHC using a regularized thermodynamic model. BMC bioinformatics 2010; 11:41.
-
(2010)
BMC bioinformatics
, vol.11
, pp. 41
-
-
Bordner, A.J.1
Mittelmann, H.D.2
-
7
-
-
33845240573
-
Predicting Class II MHC-Peptide binding: a kernel based approach using similarity scores
-
Salomon J, Flower DR: Predicting Class II MHC-Peptide binding: a kernel based approach using similarity scores. BMC bioinformatics 2006; 7:501.
-
(2006)
BMC bioinformatics
, vol.7
, pp. 501
-
-
Salomon, J.1
Flower, D.R.2
-
8
-
-
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(5):304-314.
-
(2005)
Immunogenetics
, vol.57
, Issue.5
, pp. 304-314
-
-
Bui, H.H.1
Sidney, J.2
Peters, B.3
-
9
-
-
78549266517
-
Peptide binding predictions for HLA DR, DP and DQ molecules
-
Wang P, Sidney J, Kim Y, Sette A, Lund O, Nielsen M, Peters B: Peptide binding predictions for HLA DR, DP and DQ molecules. BMC bioinformatics 2010; 11:568.
-
(2010)
BMC bioinformatics
, vol.11
, pp. 568
-
-
Wang, P.1
Sidney, J.2
Kim, Y.3
Sette, A.4
Lund, O.5
Nielsen, M.6
Peters, B.7
-
10
-
-
0033021020
-
Generation of tissue-specific and promiscuous HLA ligand databases using DNA microarrays and virtual HLA class II matrices
-
Sturniolo T, Bono E, Ding J, Raddrizzani L, Tuereci O, Sahin U, Braxenthaler M, Gallazzi F, Protti MP, Sinigaglia F, et al: Generation of tissue-specific and promiscuous HLA ligand databases using DNA microarrays and virtual HLA class II matrices. Nature biotechnology 1999; 17:555-561.
-
(1999)
Nature biotechnology
, vol.17
, pp. 555-561
-
-
Sturniolo, T.1
Bono, E.2
Ding, J.3
Raddrizzani, L.4
Tuereci, O.5
Sahin, U.6
Braxenthaler, M.7
Gallazzi, F.8
Protti, M.P.9
Sinigaglia, F.10
-
11
-
-
48249083459
-
Quantitative predictions of peptide binding to any HLA-DR molecule of known sequence: NetMHCIIpan
-
Nielsen M, Lundegaard C, Blicher T, Peters B, Sette A, Justesen S, Buus S, Lund O: Quantitative predictions of peptide binding to any HLA-DR molecule of known sequence: NetMHCIIpan. PLoS computational biology 2008; 4(7):e1000107.
-
(2008)
PLoS computational biology
, vol.4
, Issue.7
, pp. e1000107
-
-
Nielsen, M.1
Lundegaard, C.2
Blicher, T.3
Peters, B.4
Sette, A.5
Justesen, S.6
Buus, S.7
Lund, O.8
-
12
-
-
78149354807
-
NetMHCIIpan-2.0-Improved pan-specific HLA-DR predictions using a novel concurrent alignment and weight optimization training procedure
-
Nielsen M, Justesen S, Lund O, Lundegaard C, Buus S: NetMHCIIpan-2.0-Improved pan-specific HLA-DR predictions using a novel concurrent alignment and weight optimization training procedure. Immunome research 2010; 6:9.
-
(2010)
Immunome research
, vol.6
, pp. 9
-
-
Nielsen, M.1
Justesen, S.2
Lund, O.3
Lundegaard, C.4
Buus, S.5
-
13
-
-
56649091109
-
Multiple instance learning allows MHC class II epitope predictions across Alleles
-
Pfeifer N, Kohlbacher O: Multiple instance learning allows MHC class II epitope predictions across Alleles. Algorithms in Bioinformatics 2008; 210-221.
-
(2008)
Algorithms in Bioinformatics
, pp. 210-221
-
-
Pfeifer, N.1
Kohlbacher, O.2
-
14
-
-
51349122244
-
Shift-invariant adaptive double threading: learning MHC II-peptide binding
-
Zaitlen N, Reyes-Gomez M, Heckerman D, Jojic N: Shift-invariant adaptive double threading: learning MHC II-peptide binding. Journal of Computational Biology 2008; 15(7):927-942.
-
(2008)
Journal of Computational Biology
, vol.15
, Issue.7
, pp. 927-942
-
-
Zaitlen, N.1
Reyes-Gomez, M.2
Heckerman, D.3
Jojic, N.4
-
15
-
-
77956922389
-
MultiRTA: A simple yet reliable method for predicting peptide binding affinities for multiple class II MHC allotypes
-
Bordner AJ, Mittelmann HD: MultiRTA: A simple yet reliable method for predicting peptide binding affinities for multiple class II MHC allotypes. BMC bioinformatics 2010; 11:482.
-
(2010)
BMC bioinformatics
, vol.11
, pp. 482
-
-
Bordner, A.J.1
Mittelmann, H.D.2
-
16
-
-
79957588907
-
Predicting MHC-II binding affinity using multiple instance regression
-
El-Manzalawy Y, Dobbs D, Honavar V: Predicting MHC-II binding affinity using multiple instance regression. Computational Biology and Bioinformatics, IEEE/ACM Transactions 2011; 8(4):1067-1079.
-
(2011)
Computational Biology and Bioinformatics, IEEE/ACM Transactions
, vol.8
, Issue.4
, pp. 1067-1079
-
-
El-Manzalawy, Y.1
Dobbs, D.2
Honavar, V.3
-
17
-
-
84863182833
-
TEPITOPEpan: extending TEPITOPE for peptide binding prediction covering over 700 HLA-DR molecules
-
Zhang L, Chen Y, Wong HS, Zhou S, Mamitsuka H, Zhu S: TEPITOPEpan: extending TEPITOPE for peptide binding prediction covering over 700 HLA-DR molecules. PLoS One 2012; 7(2):e30483.
-
(2012)
PLoS One
, vol.7
, Issue.2
, pp. e30483
-
-
Zhang, L.1
Chen, Y.2
Wong, H.S.3
Zhou, S.4
Mamitsuka, H.5
Zhu, S.6
-
18
-
-
84908191707
-
MHC2SKpan: a novel kernel based approach for pan-specific MHC class II peptide binding prediction
-
Guo L, Luo C, Zhu S: MHC2SKpan: a novel kernel based approach for pan-specific MHC class II peptide binding prediction. BMC Genomics 2013; 14(Suppl 5):S11.
-
(2013)
BMC Genomics
, vol.14
, pp. S11
-
-
Guo, L.1
Luo, C.2
Zhu, S.3
-
19
-
-
57649174707
-
Evaluation of MHC-II peptide binding prediction servers: applications for vaccine research
-
Lin H, Zhang G, Tongchusak S, Reinherz E, Brusic V: Evaluation of MHC-II peptide binding prediction servers: applications for vaccine research. BMC Bioinformatics 2008; 9:S22.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. S22
-
-
Lin, H.1
Zhang, G.2
Tongchusak, S.3
Reinherz, E.4
Brusic, V.5
-
20
-
-
0035989339
-
Prediction of promiscuous peptides that bind HLA class I molecules
-
Brusic V, Petrovsky N, Zhang G, Bajic V: Prediction of promiscuous peptides that bind HLA class I molecules. Immunol Cell Biol 2002; 80(3):280-285.
-
(2002)
Immunol Cell Biol
, vol.80
, Issue.3
, pp. 280-285
-
-
Brusic, V.1
Petrovsky, N.2
Zhang, G.3
Bajic, V.4
-
21
-
-
33745593748
-
Improving MHC binding peptide prediction by incorporating binding data of auxiliary MHC molecules
-
Zhu S, Udaka K, Sidney J, Sette A, Aoki-Kinoshita K, Mamitsuka H: Improving MHC binding peptide prediction by incorporating binding data of auxiliary MHC molecules. Bioinformatics 2006; 22(13):1648-1655.
-
(2006)
Bioinformatics
, vol.22
, Issue.13
, pp. 1648-1655
-
-
Zhu, S.1
Udaka, K.2
Sidney, J.3
Sette, A.4
Aoki-Kinoshita, K.5
Mamitsuka, H.6
-
22
-
-
84877639844
-
Learning a peptide-protein binding affinity predictor with kernel ridge regression
-
Giguère S, Marchand M, Laviolette F, Drouin A, Corbeil J: Learning a peptide-protein binding affinity predictor with kernel ridge regression. BMC bioinformatics 2013; 14:82.
-
(2013)
BMC bioinformatics
, vol.14
, pp. 82
-
-
Giguère, S.1
Marchand, M.2
Laviolette, F.3
Drouin, A.4
Corbeil, J.5
-
23
-
-
33947180489
-
Multiple-instance learning via embedded instance selection
-
Chen Y, Bi J, Wang ZJ: Multiple-instance learning via embedded instance selection. Pattern Analysis and Machine Intelligence, IEEE Transactions 2006; 28(12):1931-1947.
-
(2006)
Pattern Analysis and Machine Intelligence, IEEE Transactions
, vol.28
, Issue.12
, pp. 1931-1947
-
-
Chen, Y.1
Bi, J.2
Wang, Z.J.3
-
27
-
-
77954259597
-
MetaMHC: a meta approach to predict peptides binding to MHC molecules
-
Hu X, Zhou W, Udaka K, Mamitsuka H, Zhu S: MetaMHC: a meta approach to predict peptides binding to MHC molecules. Nucleic Acids Research 2010; 38W:474-479.
-
(2010)
Nucleic Acids Research
, vol.38W
, pp. 474-479
-
-
Hu, X.1
Zhou, W.2
Udaka, K.3
Mamitsuka, H.4
Zhu, S.5
-
28
-
-
81255197618
-
Ensemble approaches for improving HLA class I-peptide binding prediction
-
Hu X, Mamitsuka H, Zhu S: Ensemble approaches for improving HLA class I-peptide binding prediction. J Immunol Methods 2011; 374(1-2):47-52.
-
(2011)
J Immunol Methods
, vol.374
, Issue.1-2
, pp. 47-52
-
-
Hu, X.1
Mamitsuka, H.2
Zhu, S.3
|