Published in PLoS One on July 19, 2010
Differential geometric analysis of alterations in MH α-helices. J Comput Chem (2013) 0.85
MH(2)c: Characterization of major histocompatibility α-helices - an information criterion approach. Comput Phys Commun (2012) 0.83
PeptX: using genetic algorithms to optimize peptides for MHC binding. BMC Bioinformatics (2011) 0.83
Large scale characterization of the LC13 TCR and HLA-B8 structural landscape in reaction to 172 altered peptide ligands: a molecular dynamics simulation study. PLoS Comput Biol (2014) 0.83
Association of HLA-DR1 with the allergic response to the major mugwort pollen allergen: molecular background. BMC Immunol (2012) 0.83
Structural and dynamical insights on HLA-DR2 complexes that confer susceptibility to multiple sclerosis in Sardinia: a molecular dynamics simulation study. PLoS One (2013) 0.81
Relaxation estimation of RMSD in molecular dynamics immunosimulations. Comput Math Methods Med (2012) 0.79
Is an intuitive convergence definition of molecular dynamics simulations solely based on the root mean square deviation possible? J Comput Biol (2011) 0.79
Early relaxation dynamics in the LC 13 T cell receptor in reaction to 172 altered peptide ligands: a molecular dynamics simulation study. PLoS One (2013) 0.78
Major Histocompatibility Complex (MHC) Class I and MHC Class II Proteins: Conformational Plasticity in Antigen Presentation. Front Immunol (2017) 0.75
TCR triggering by pMHC ligands tethered on surfaces via poly(ethylene glycol) depends on polymer length. PLoS One (2014) 0.75
VMD: visual molecular dynamics. J Mol Graph (1996) 117.02
SWISS-MODEL and the Swiss-PdbViewer: an environment for comparative protein modeling. Electrophoresis (1997) 57.27
Knowledge-based protein secondary structure assignment. Proteins (1995) 14.08
A graph-theory algorithm for rapid protein side-chain prediction. Protein Sci (2003) 9.25
T-cell epitope of the autoantigen myelin basic protein that induces encephalomyelitis. Nature (1987) 3.96
Sending signals dynamically. Science (2009) 3.64
Separation of IL-4 production from Th cell proliferation by an altered T cell receptor ligand. Science (1991) 3.58
Antigen recognition in autoimmune encephalomyelitis and the potential for peptide-mediated immunotherapy. Cell (1989) 2.77
Molecular dynamics simulations. Curr Opin Struct Biol (2002) 1.93
A naturally selected dimorphism within the HLA-B44 supertype alters class I structure, peptide repertoire, and T cell recognition. J Exp Med (2003) 1.72
Major histocompatibility complex binding affinity of an antigenic determinant is crucial for the differential secretion of interleukin 4/5 or interferon gamma by T cells. Proc Natl Acad Sci U S A (1995) 1.49
Structural snapshot of aberrant antigen presentation linked to autoimmunity: the immunodominant epitope of MBP complexed with I-Au. Immunity (2002) 1.47
A single amino acid change in a myelin basic protein peptide confers the capacity to prevent rather than induce experimental autoimmune encephalomyelitis. Proc Natl Acad Sci U S A (1991) 1.45
Separation of T helper 1 clone cytolysis from proliferation and lymphokine production using analog peptides. J Immunol (1993) 1.40
An altered position of the alpha 2 helix of MHC class I is revealed by the crystal structure of HLA-B*3501. Immunity (1996) 1.38
Induction of experimental allergic encephalomyelitis in PL/J and (SJL/J x PL/J)F1 mice by myelin basic protein and its peptides: localization of a second encephalitogenic determinant. J Immunol (1983) 1.35
Binding interactions between peptides and proteins of the class II major histocompatibility complex. Med Res Rev (2002) 1.34
Conformational flexibility of the MHC class I alpha1-alpha2 domain in peptide bound and free states: a molecular dynamics simulation study. Biophys J (2004) 1.24
Model for the peptide-free conformation of class II MHC proteins. PLoS One (2008) 1.17
Flexibility of the MHC class II peptide binding cleft in the bound, partially filled, and empty states: a molecular dynamics simulation study. Biopolymers (2009) 1.16
3-Layer-based analysis of peptide-MHC interaction: in silico prediction, peptide binding affinity and T cell activation in a relevant allergen-specific model. Mol Immunol (2009) 1.09
HLA-B27 subtypes differentially associated with disease exhibit conformational differences in solution. J Mol Biol (2007) 1.08
Solution mapping of T cell receptor docking footprints on peptide-MHC. Proc Natl Acad Sci U S A (2007) 1.06
Toward an atomistic understanding of the immune synapse: large-scale molecular dynamics simulation of a membrane-embedded TCR-pMHC-CD4 complex. Mol Immunol (2007) 1.01
Protein-protein interaction investigated by steered molecular dynamics: the TCR-pMHC complex. Biophys J (2008) 1.00
Quantitative analysis of peptides from myelin basic protein binding to the MHC class II protein, I-Au, which confers susceptibility to experimental allergic encephalomyelitis. Mol Med (1996) 0.92
Minor structural changes in a mutated human melanoma antigen correspond to dramatically enhanced stimulation of a CD4+ tumor-infiltrating lymphocyte line. J Mol Biol (2002) 0.88
Modeling the interactions of a peptide-major histocompatibility class I ligand with its receptors. I. Recognition by two alpha beta T cell receptors. J Comput Aided Mol Des (2000) 0.79
A putative bioactive conformation for the altered peptide ligand of myelin basic protein and inhibitor of experimental autoimmune encephalomyelitis [Arg91, Ala96] MBP87-99. J Mol Graph Model (2005) 0.78
Conditional deletion of histone deacetylase 1 in T cells leads to enhanced airway inflammation and increased Th2 cytokine production. J Immunol (2010) 1.39
Long-lived Th2 memory in experimental allergic asthma. J Immunol (2002) 1.33
Treatment of allergic asthma: modulation of Th2 cells and their responses. Respir Res (2011) 1.31
The AHL- and BDSF-dependent quorum sensing systems control specific and overlapping sets of genes in Burkholderia cenocepacia H111. PLoS One (2012) 1.10
3-Layer-based analysis of peptide-MHC interaction: in silico prediction, peptide binding affinity and T cell activation in a relevant allergen-specific model. Mol Immunol (2009) 1.09
A critical cross-validation of high throughput structural binding prediction methods for pMHC. J Comput Aided Mol Des (2009) 1.03
The spatial pattern of coronary capillaries in patients with dilated, ischemic, or inflammatory cardiomyopathy. Cardiovasc Pathol (2005) 1.02
Fate of transgenic DNA from orally administered Bt MON810 maize and effects on immune response and growth in pigs. PLoS One (2011) 0.99
Response of Burkholderia cenocepacia H111 to micro-oxia. PLoS One (2013) 0.92
Dendritic polyglycerolsulfate near infrared fluorescent (NIRF) dye conjugate for non-invasively monitoring of inflammation in an allergic asthma mouse model. PLoS One (2013) 0.91
The protein tyrosine kinase Tec regulates a CD44highCD62L- Th17 subset. J Immunol (2010) 0.90
vmdICE: a plug-in for rapid evaluation of molecular dynamics simulations using VMD. J Comput Chem (2010) 0.90
A novel low molecular weight inhibitor of dendritic cells and B cells blocks allergic inflammation. Am J Respir Crit Care Med (2005) 0.90
Comparison of the α-amylase inhibitor-1 from common bean (Phaseolus vulgaris) varieties and transgenic expression in other legumes--post-translational modifications and immunogenicity. J Agric Food Chem (2011) 0.89
The hemolymph proteome of fed and starved Drosophila larvae. PLoS One (2013) 0.88
Repeated aerosol allergen exposure suppresses inflammation in B-cell-deficient mice with established allergic asthma. Int Arch Allergy Immunol (2003) 0.87
Side chain substitution benchmark for peptide/MHC interaction. Protein Sci (2008) 0.87
Ephrin-A1 suppresses Th2 cell activation and provides a regulatory link to lung epithelial cells. J Immunol (2004) 0.86
Differential geometric analysis of alterations in MH α-helices. J Comput Chem (2013) 0.85
Recurrent aerosol antigen exposure induces distinct patterns of experimental allergic asthma in mice. Clin Immunol (2002) 0.84
Climate Change and Future Pollen Allergy in Europe. Environ Health Perspect (2016) 0.84
Association of HLA-DR1 with the allergic response to the major mugwort pollen allergen: molecular background. BMC Immunol (2012) 0.83
Long-term deposition of inhaled antigen in lung resident CD11b-CD11c+ cells. Am J Respir Cell Mol Biol (2006) 0.83
PeptX: using genetic algorithms to optimize peptides for MHC binding. BMC Bioinformatics (2011) 0.83
jSimMacs for GROMACS: a Java application for advanced molecular dynamics simulations with remote access capability. J Chem Inf Model (2009) 0.83
Systemic administration of antigen-pulsed dendritic cells induces experimental allergic asthma in mice upon aerosol antigen rechallenge. Clin Immunol (2002) 0.81
Genetically modified α-amylase inhibitor peas are not specifically allergenic in mice. PLoS One (2013) 0.81
Voronoi polyhedra analysis of optimized arterial tree models. Ann Biomed Eng (2003) 0.80
Proteomic analysis reveals drug accessible cell surface N-glycoproteins of primary and established glioblastoma cell lines. J Proteome Res (2012) 0.79
An attempt at a molecular prediction of metastasis in patients with primary cutaneous melanoma. PLoS One (2012) 0.79
Fractal properties of perfusion heterogeneity in optimized arterial trees: a model study. J Gen Physiol (2003) 0.79
Early relaxation dynamics in the LC 13 T cell receptor in reaction to 172 altered peptide ligands: a molecular dynamics simulation study. PLoS One (2013) 0.78
Inhaled dexamethasone differentially attenuates disease relapse and established allergic asthma in mice. Clin Immunol (2004) 0.78
A link between arabinose utilization and oxalotrophy in Bradyrhizobium japonicum. Appl Environ Microbiol (2014) 0.78
Proteomics analysis of Psychotria leaf nodule symbiosis: improved genome annotation and metabolic predictions. Mol Plant Microbe Interact (2013) 0.77
Combine and conquer: surfactants, solvents, and chaotropes for robust mass spectrometry based analyses of membrane proteins. Anal Chem (2014) 0.77
Error estimation of geometrical data obtained by histomorphometry of oblique vessel sections: a computer model study. Comput Biol Med (2005) 0.75