Toward a multiscale model of antigen presentation in immunity (Q36762526)

16 August 2017

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title

Toward a multiscale model of antigen presentation in immunity (English)

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16 August 2017

Denise E Kirschner

1

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16 August 2017

Stewart T Chang

2

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16 August 2017

Thomas W Riggs

3

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16 August 2017

Nicolas Perry

4

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16 August 2017

Jennifer J Linderman

5

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16 August 2017

1 April 2007

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16 August 2017

Immunological Reviews

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16 August 2017

216

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16 August 2017

93-118

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A strategy for integrative computational physiology

16 August 2017

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https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Multiscale modeling of cardiac cellular energetics

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

The role of temporal parameters in a thalamocortical model of analogy.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Dynamics of a neural system with a multiscale architecture

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Multiscale brain modelling

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Towards whole-organ modelling of tumour growth.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Computational analysis of EGFR inhibition by Argos

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Multi-scale modeling to predict ligand presentation within RGD nanopatterned hydrogels

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Recognition of lipid antigens by T cells

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Relationship between the inhibition constant (K1) and the concentration of inhibitor which causes 50 per cent inhibition (I50) of an enzymatic reaction

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Prediction of MHC class II-binding peptides using an evolutionary algorithm and artificial neural network.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

MHCBN: a comprehensive database of MHC binding and non-binding peptides

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

AntiJen: a quantitative immunology database integrating functional, thermodynamic, kinetic, biophysical, and cellular data

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Could TCR antagonism explain associations between MHC genes and disease?

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Understanding how combinations of HLA and KIR genes influence disease

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

HLA associated genetic predisposition to autoimmune diseases: Genes involved and possible mechanisms

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Identification of HLA class II-restricted determinants of Mycobacterium tuberculosis-derived proteins by using HLA-transgenic, class II-deficient mice

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

The relationship between predicted peptide-MHC class II affinity and T-cell activation in a HLA-DRbeta1*0401 transgenic mouse model

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Class II MHC peptide loading by the professionals

21 January 2018

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https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Lysosomal cysteine proteases regulate antigen presentation

21 January 2018

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https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

HLA-DM induces CLIP dissociation from MHC class II alpha beta dimers and facilitates peptide loading

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Specificity and promiscuity among naturally processed peptides bound to HLA-DR alleles

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

IL-6 switches the differentiation of monocytes from dendritic cells to macrophages

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

TNF skews monocyte differentiation from macrophages to dendritic cells

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Protein-specific helper T-lymphocyte formation initiated by dendritic cells.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

High levels of a major histocompatibility complex II-self peptide complex on dendritic cells from the T cell areas of lymph nodes

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Visualizing the generation of memory CD4 T cells in the whole body

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Direct observation of ligand recognition by T cells.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Mathematical modeling of helper T lymphocyte/antigen-presenting cell interactions: analysis of methods for modifying antigen processing and presentation

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Homing and cellular traffic in lymph nodes

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

High endothelial venules (HEVs): specialized endothelium for lymphocyte migration

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

What is the importance of the immunological synapse?

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

The immunological synapse balances T cell receptor signaling and degradation

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Lymphocyte homing and homeostasis

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

T-Cell Function and Migration — Two Sides of the Same Coin

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Distinct compartmentalization of CD4+ T-cell effector function versus proliferative capacity during pulmonary cryptococcosis

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Visualizing the first 50 hr of the primary immune response to a soluble antigen.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Autonomous T cell trafficking examined in vivo with intravital two-photon microscopy

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

21 January 2018

T cell death and memory

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https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Stromal cell networks regulate lymphocyte entry, migration, and territoriality in lymph nodes

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Chemokines enhance immunity by guiding naive CD8+ T cells to sites of CD4+ T cell-dendritic cell interaction.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Antigen-engaged B cells undergo chemotaxis toward the T zone and form motile conjugates with helper T cells

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Imaging the single cell dynamics of CD4+ T cell activation by dendritic cells in lymph nodes

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Lymphocyte trafficking across high endothelial venules: dogmas and enigmas

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

The effects of antigen on the migration of recirculating lymphocytes through single lymph nodes

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Cords, channels, corridors and conduits: critical architectural elements facilitating cell interactions in the lymph node cortex

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

The strategy of T cell antigen-presenting cell encounter in antigen-draining lymph nodes revealed by imaging of initial T cell activation.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Dendritic-cell trafficking to lymph nodes through lymphatic vessels

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

The importance of lymphocyte trafficking in regulating blood lymphocyte levels during HIV and SIV infections

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

T cell repertoire scanning is promoted by dynamic dendritic cell behavior and random T cell motility in the lymph node

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

The human immune response to Mycobacterium tuberculosis in lung and lymph node.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Dendritic cell trafficking and antigen presentation in the human immune response to Mycobacterium tuberculosis.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Circulating T and B lymphocytes of the mouse. II. Lifespan.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

From naive to memory T cells

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Human cytomegalovirus inhibits major histocompatibility complex class II expression by disruption of the Jak/Stat pathway

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Cutting edge: impairment of dendritic cells and adaptive immunity by Ebola and Lassa viruses

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Receptor binding kinetics and cellular responses of six N-formyl peptide agonists in human neutrophils

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Macrophage response to Mycobacterium tuberculosis infection

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Chemistry of peptides associated with MHC class I and class II molecules

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Prediction of MHC class II binding peptides based on an iterative learning model

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Class II MHC quantitative binding motifs derived from a large molecular database with a versatile iterative stepwise discriminant analysis meta-algorithm

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Predicting class II MHC/peptide multi-level binding with an iterative stepwise discriminant analysis meta-algorithm

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

A consensus strategy for combining HLA-DR binding algorithms

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Quantitative approaches to computational vaccinology.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Towards the in silico identification of class II restricted T-cell epitopes: a partial least squares iterative self-consistent algorithm for affinity prediction.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Neural network-based prediction of candidate T-cell epitopes.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Application of an artificial neural network to predict specific class I MHC binding peptide sequences

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Sensitive quantitative predictions of peptide-MHC binding by a 'Query by Committee' artificial neural network approach.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Application of support vector machines for T-cell epitopes prediction

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Prediction of CTL epitopes using QM, SVM and ANN techniques.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

A structure-based algorithm to predict potential binding peptides to MHC molecules with hydrophobic binding pockets

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Structure-based prediction of binding peptides to MHC class I molecules: application to a broad range of MHC alleles

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

A structure-based approach for prediction of MHC-binding peptides

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Structural prediction of peptides binding to MHC class I molecules

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Structural prediction of peptides bound to MHC class I.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Computational methods for prediction of T-cell epitopes--a framework for modelling, testing, and applications

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

SYFPEITHI: database for MHC ligands and peptide motifs

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Mhc-guided processing: binding of large antigen fragments

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Improved prediction of MHC class I and class II epitopes using a novel Gibbs sampling approach.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

N-terminal elongation of a peptide determinant beyond the first primary anchor improves binding to H-2 I-Ad and HLA-DR1 by backbone-dependent and aromatic side chain-dependent interactions, respectively

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Quantitative analysis of peptide-MHC class II interaction

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Virtual models of the HLA class I antigen processing pathway

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Integrated modeling of the major events in the MHC class I antigen processing pathway

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

The relationship between antigen concentration, antigen internalization, and antigenic complexes: modeling insights into antigen processing and presentation

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Antigen processing and presentation: how can a foreign antigen be recognized in a sea of self proteins?

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Multiple mechanisms allow Mycobacterium tuberculosis to continuously inhibit MHC class II-mediated antigen presentation by macrophages

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Dendritic cells use macropinocytosis and the mannose receptor to concentrate macromolecules in the major histocompatibility complex class II compartment: downregulation by cytokines and bacterial products

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Dynamics of naive and memory CD4+ T lymphocytes in HIV-1 disease progression

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Population biology of HIV-1 infection: viral and CD4+ T cell demographics and dynamics in lymphatic tissues

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

HIV-induced decline in blood CD4/CD8 ratios: viral killing or altered lymphocyte trafficking?

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Influence of plasma viremia on defects in number and immunophenotype of blood dendritic cell subsets in human immunodeficiency virus 1-infected individuals

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Allometric relationships of cell numbers and size in the mammalian lung

21 January 2018

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https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Cell number and distribution in human and rat airways

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Increased release of interleukin-1 beta, interleukin-6, and tumor necrosis factor-alpha by bronchoalveolar cells lavaged from involved sites in pulmonary tuberculosis

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

The physiology of lymphocyte migration through the single lymph node in vivo

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Drug concentration heterogeneity facilitates the evolution of drug resistance.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Model of HIV-1 disease progression based on virus-induced lymph node homing and homing-induced apoptosis of CD4+ lymphocytes

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Comparison of three Kinetic Models of HIV-1 Infection: Implications for Optimization of Treatment

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Quantitation of HIV-1-Specific Cytotoxic T Lymphocytes and Plasma Load of Viral RNA

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Frequency and phenotyping of human immunodeficiency virus (HIV)-specific CD8+ T cells in HIV-infected children, using major histocompatibility complex class I peptide tetramers

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Modelling biological complexity: a physical scientist's perspective

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Dimensionality in cardiac modelling

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

The Mycobacterium tuberculosis 19-kilodalton lipoprotein inhibits gamma interferon-regulated HLA-DR and Fc gamma R1 on human macrophages through Toll-like receptor 2.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Inhibition of major histocompatibility complex II expression and antigen processing in murine alveolar macrophages by Mycobacterium bovis BCG and the 19-kilodalton mycobacterial lipoprotein

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Prolonged toll-like receptor signaling by Mycobacterium tuberculosis and its 19-kilodalton lipoprotein inhibits gamma interferon-induced regulation of selected genes in macrophages

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Prediction of MHC class I binding peptides, using SVMHC

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Quantitative online prediction of peptide binding to the major histocompatibility complex

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Selection of representative protein data sets

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

UniqueProt: Creating representative protein sequence sets

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Systems biology markup language: Level 2 and beyond

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

CellML: its future, present and past

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

UML as a cell and biochemistry modeling language.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

Peptide length-based prediction of peptide-MHC class II binding.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

The Effects of Different HIV Type 1 Strains on Human Thymic Function

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

In vivo competition between self peptides and foreign antigens in T-cell activation

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1600-065X.2007.00490.X

10.1111/J.1600-065X.2007.00490.X

21 January 2018

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DOI

1 reference

16 August 2017

1 reference