Mar 01, 2019

Immunome Research Archive (Hosted by NeuEve)

Words by Kevin Tao

Scientifically edited by Kevin Tao

Medically reviewed by Dr. Renjie Chang, OBGYN

Immunome Research was a scientific journal published from 2005-2010 about cutting edge immunology research, integrating genomics, and bioinformatics.

Immunome Research has been offline and out of print for 8 years!

We love science and I jumped at the opportunity to acquire the “immunome-research.com” domain and put all the articles back online.

I have put the articles originally published in Immunome Research back online:

Editorial

Immunome Research

Immunology research has been transformed in the post-genomics era, with high throughput molecular biology and information technologies taking an increasingly central role. This has led to the development of a …

Authors: Nikolai Petrovsky

Citation: Immunome Research 2005 1:1

Published on: 20 September 2005
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Database

An ontology for immune epitopes: application to the design of a broad scope database of immune reactivities

Epitopes can be defined as the molecular structures bound by specific receptors, which are recognized during immune responses. The Immune Epitope Database and Analysis Resource (IEDB) project will catalog and …

Authors: Muthuraman Sathiamurthy, Bjoern Peters, Huynh-Hoa Bui, John Sidney, John Mokili, Stephen S Wilson, Ward Fleri, Deborah L McGuinness, Philip E Bourne and Alessandro Sette

Citation: Immunome Research 2005 1:2

Published on: 20 September 2005
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Research

IMGT, the international ImMunoGeneTics information system^®: a standardized approach for immunogenetics and immunoinformatics

IMGT, the international ImMunoGeneTics information system^® http://imgt.cines.fr

Authors: Marie-Paule Lefranc

Citation: Immunome Research 2005 1:3

Published on: 20 September 2005
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Database

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

AntiJen is a database system focused on the integration of kinetic, thermodynamic, functional, and cellular data within the context of immunology and vaccinology. Compared to its progenitor JenPep, the interfa…

Authors: Christopher P Toseland, Debra J Clayton, Helen McSparron, Shelley L Hemsley, Martin J Blythe, Kelly Paine, Irini A Doytchinova, Pingping Guan, Channa K Hattotuwagama and Darren R Flower

Citation: Immunome Research 2005 1:4

Published on: 6 October 2005
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Research

Modelling vaccination schedules for a cancer immunoprevention vaccine

We present a systematic approach to search for an effective vaccination schedule using mathematical computerized models. Our study is based on our previous model that simulates the cancer vs immune system comp…

Authors: Santo Motta, Filippo Castiglione, Pierluigi Lollini and Francesco Pappalardo

Citation: Immunome Research 2005 1:5

Published on: 7 October 2005
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Research

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

Prediction of the binding ability of antigen peptides to major histocompatibility complex (MHC) class II molecules is important in vaccine development. The variable length of each binding peptide complicates t…

Authors: Naveen Murugan and Yang Dai

Citation: Immunome Research 2005 1:6

Published on: 13 December 2005
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Research

Modeling the bound conformation of Pemphigus Vulgaris-associated peptides to MHC Class II DR and DQ Alleles

Pemphigus vulgaris (PV) is a severe autoimmune blistering disorder characterized by the presence of pathogenic autoantibodies directed against desmoglein-3 (Dsg3), involving specific DR4 and DR6 alleles in Cau…

Authors: Joo Chuan Tong, Jeff Bramson, Darja Kanduc, Selwyn Chow, Animesh A Sinha and Shoba Ranganathan

Citation: Immunome Research 2006 2:1

Published on: 21 January 2006
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Research

Improved method for predicting linear B-cell epitopes

B-cell epitopes are the sites of molecules that are recognized by antibodies of the immune system. Knowledge of B-cell epitopes may be used in the design of vaccines and diagnostics tests. It is therefore of i…

Authors: Jens Erik Pontoppidan Larsen, Ole Lund and Morten Nielsen

Citation: Immunome Research 2006 2:2

Published on: 24 April 2006
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Software

PRED^TAP: a system for prediction of peptide binding to the human transporter associated with antigen processing

The transporter associated with antigen processing (TAP) is a critical component of the major histocompatibility complex (MHC) class I antigen processing and presentation pathway. TAP transports antigenic pept…

Authors: Guang Lan Zhang, Nikolai Petrovsky, Chee Keong Kwoh, J Thomas August and Vladimir Brusic

Citation: Immunome Research 2006 2:3

Published on: 23 May 2006
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Research

In silico identification of opossum cytokine genes suggests the complexity of the marsupial immune system rivals that of eutherian mammals

Cytokines are small proteins that regulate immunity in vertebrate species. Marsupial and eutherian mammals last shared a common ancestor more than 180 million years ago, so it is not surprising that attempts t…

Authors: Emily SW Wong, Lauren J Young, Anthony T Papenfuss and Katherine Belov

Citation: Immunome Research 2006 2:4

Published on: 10 November 2006
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Database

Protein sequence database for pathogenic arenaviruses

Arenaviruses are a family of rodent-borne viruses that cause several hemorrhagic fevers. These diseases can be devastating and are often lethal. Herein, to aid in the design and development of diagnostics, tre…

Authors: Huynh-Hoa Bui, Jason Botten, Nicolas Fusseder, Valerie Pasquetto, Bianca Mothe, Michael J Buchmeier and Alessandro Sette

Citation: Immunome Research 2007 3:1

Published on: 8 February 2007
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Research

A novel strategy for the identification of antigens that are recognised by bovine MHC class I restricted cytotoxic T cells in a protozoan infection using reverse vaccinology

Immunity against the bovine protozoan parasite Theileria parva has previously been shown to be mediated through lysis of parasite-infected cells by MHC class I restricted CD8⁺ cytotoxic T lymphocytes. It is hypot…

Authors: Simon P Graham, Yoshikazu Honda, Roger Pellé, Duncan M Mwangi, E Jane Glew, Etienne P de Villiers, Trushar Shah, Richard Bishop, Pierre van der Bruggen, Vishvanath Nene and Evans LN Taracha

Citation: Immunome Research 2007 3:2

Published on: 9 February 2007
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Software

EpitopeViewer: a Java application for the visualization and analysis of immune epitopes in the Immune Epitope Database and Analysis Resource (IEDB)

Structural information about epitopes, particularly the three-dimensional (3D) structures of antigens in complex with immune receptors, presents a valuable source of data for immunology. This information is av…

Authors: John E Beaver, Philip E Bourne and Julia V Ponomarenko

Citation: Immunome Research 2007 3:3

Published on: 21 February 2007
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Database

ImmTree: Database of evolutionary relationships of genes and proteins in the human immune system

The immune system, which is a complex machinery, is based on the highly coordinated expression of a wide array of genes and proteins. The evolutionary history of the human immune system is not well characteris…

Authors: Csaba Ortutay, Markku Siermala and Mauno Vihinen

Citation: Immunome Research 2007 3:4

Published on: 21 March 2007
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Research

Strength in numbers: achieving greater accuracy in MHC-I binding prediction by combining the results from multiple prediction tools

Peptides derived from endogenous antigens can bind to MHC class I molecules. Those which bind with high affinity can invoke a CD8⁺ immune response, resulting in the destruction of infected cells. Much work in imm…

Authors: Brett Trost, Mik Bickis and Anthony Kusalik

Citation: Immunome Research 2007 3:5

Published on: 24 March 2007
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Database

IDR knowledge base for primary immunodeficiencies

The ImmunoDeficiency Resource (IDR) is a knowledge base for the integration of the clinical, biochemical, genetic, genomic, proteomic, structural, and computational data of primary immunodeficiencies. The need…

Authors: Crina Samarghitean, Jouni Väliaho and Mauno Vihinen

Citation: Immunome Research 2007 3:6

Published on: 29 March 2007
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Research

In silico characterization of immunogenic epitopes presented by HLA-Cw*0401

HLA-C locus products are poorly understood in part due to their low expression at the cell surface. Recent data indicate that these molecules serve as major restriction elements for human immunodeficiency viru…

Authors: Joo Chuan Tong, Zong Hong Zhang, J Thomas August, Vladimir Brusic, Tin Wee Tan and Shoba Ranganathan

Citation: Immunome Research 2007 3:7

Published on: 20 August 2007
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Research

Using the natural evolution of a rotavirus-specific human monoclonal antibody to predict the complex topography of a viral antigenic site

Understanding the interaction between viral proteins and neutralizing antibodies at atomic resolution is hindered by a lack of experimentally solved complexes. Progress in computational docking has led to the …

Authors: Brett A McKinney, Nicole L Kallewaard, James E Crowe Jr and Jens Meiler

Citation: Immunome Research 2007 3:8

Published on: 18 September 2007
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Methodology

Amino acid biophysical properties in the statistical prediction of peptide-MHC class I binding

A key step in the development of an adaptive immune response to pathogens or vaccines is the binding of short peptides to molecules of the Major Histocompatibility Complex (MHC) for presentation to T lymphocyt…

Authors: Surajit Ray and Thomas B Kepler

Citation: Immunome Research 2007 3:9

Published on: 29 October 2007
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Research

An analysis of the epitope knowledge related to Mycobacteria

Tuberculosis, caused by the bacterium Mycobacterium tuberculosis, remains a leading cause of infectious disease morbidity and mortality, and is responsible for more than 2 million deaths a year. Reports about ext…

Authors: Martin J Blythe, Qing Zhang, Kerrie Vaughan, Romulo de Castro Jr, Nima Salimi, Huynh-Hoa Bui, David M Lewinsohn, Joel D Ernst, Bjoern Peters and Alessandro Sette

Citation: Immunome Research 2007 3:10

Published on: 14 December 2007
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Research

Analysis and prediction of protective continuous B-cell epitopes on pathogen proteins

The application of peptide based diagnostics and therapeutics mimicking part of protein antigen is experiencing renewed interest. So far selection and design rationale for such peptides is usually driven by T-…

Authors: Johannes Sollner, Rainer Grohmann, Ronald Rapberger, Paul Perco, Arno Lukas and Bernd Mayer

Citation: Immunome Research 2008 4:1

Published on: 7 January 2008
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Research

Quantitative peptide binding motifs for 19 human and mouse MHC class I molecules derived using positional scanning combinatorial peptide libraries

It has been previously shown that combinatorial peptide libraries are a useful tool to characterize the binding specificity of class I MHC molecules. Compared to other methodologies, such as pool sequencing or…

Authors: John Sidney, Erika Assarsson, Carrie Moore, Sandy Ngo, Clemencia Pinilla, Alessandro Sette and Bjoern Peters

Citation: Immunome Research 2008 4:2

Published on: 25 January 2008
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Research

Large-scale analysis of human heavy chain V(D)J recombination patterns

The processes involved in the somatic assembly of antigen receptor genes are unique to the immune system and are driven largely by random events. Subtle biases, however, may exist and provide clues to the mole…

Authors: Joseph M Volpe and Thomas B Kepler

Citation: Immunome Research 2008 4:3

Published on: 27 February 2008
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Research

Efficiency of the immunome protein interaction network increases during evolution

Details of the mechanisms and selection pressures that shape the emergence and development of complex biological systems, such as the human immune system, are poorly understood. A recent definition of a refere…

Authors: Csaba Ortutay and Mauno Vihinen

Citation: Immunome Research 2008 4:4

Published on: 22 April 2008
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Research

Expression analysis of G Protein-Coupled Receptors in mouse macrophages

Monocytes and macrophages express an extensive repertoire of G Protein-Coupled Receptors (GPCRs) that regulate inflammation and immunity. In this study we performed a systematic micro-array analysis of GPCR ex…

Authors: Jane E Lattin, Kate Schroder, Andrew I Su, John R Walker, Jie Zhang, Tim Wiltshire, Kaoru Saijo, Christopher K Glass, David A Hume, Stuart Kellie and Matthew J Sweet

Citation: Immunome Research 2008 4:5

Published on: 29 April 2008
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Research

Peptide length significantly influences in vitro affinity for MHC class II molecules

Class II Major Histocompatibility Complex (MHC) molecules have an open-ended binding groove which can accommodate peptides of varying lengths. Several studies have demonstrated that peptide flanking residues (…

Authors: Cathal O’Brien, Darren R Flower and Conleth Feighery

Citation: Immunome Research 2008 4:6

Published on: 26 November 2008
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Research

Data mining of cancer vaccine trials: a bird’s-eye view

A wealth of information on clinical trials has been provided by publicly accessible online registries. Information technology and data exchange standards enable rapid extraction, summarization, and visualizati…

Authors: Xiaohong Cao, Karen B Maloney and Vladimir Brusic

Citation: Immunome Research 2008 4:7

Published on: 12 December 2008
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Research

Genetic correlates of autoreactivity and autoreactive potential in human Ig heavy chains

Immature bone marrow B cells are known to have longer CDR3 than mature peripheral B cells, and this genetic characteristic has been shown to correlate with autoreactivity in these early cells. B-cell Central t…

Authors: Joseph M Volpe and Thomas B Kepler

Citation: Immunome Research 2009 5:1

Published on: 27 February 2009
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Research

Functional recombinant MHC class II molecules and high-throughput peptide-binding assays

Molecules of the class II major histocompability complex (MHC-II) specifically bind and present exogenously derived peptide epitopes to CD4+ T helper cells. The extreme polymorphism of the MHC-II hampers the c…

Authors: Sune Justesen, Mikkel Harndahl, Kasper Lamberth, Lise-Lotte B Nielsen and Søren Buus

Citation: Immunome Research 2009 5:2

Published on: 5 May 2009
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Research

Of mice and humans: how good are HLA transgenic mice as a model of human immune responses?

Previous studies have defined vaccinia virus (VACV)-derived T cell epitopes in VACV-infected human leukocyte antigen-A*0201 (HLA-A2.1) transgenic (Tg) mice and A2.1/1/positive human Dryvax vaccinees. A total of …

Authors: Maya F Kotturi, Erika Assarsson, Bjoern Peters, Howard Grey, Carla Oseroff, Valerie Pasquetto and Alessandro Sette

Citation: Immunome Research 2009 5:3

Published on: 17 June 2009
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Research

Critical role of glycosylation in determining the length and structure of T cell epitopes

Using a combined in silico approach, we investigated the glycosylation of T cell epitopes and autoantigens. The present systems biology analysis was made possible by currently available databases (representing fu…

Authors: Tamás G Szabó, Robin Palotai, Péter Antal, Itay Tokatly, László Tóthfalusi, Ole Lund, György Nagy, András Falus and Edit I Buzás

Citation: Immunome Research 2009 5:4

Published on: 24 September 2009
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Research

Ribosomal protein mRNAs are translationally-regulated during human dendritic cells activation by LPS

Dendritic cells (DCs) are the sentinels of the mammalian immune system, characterized by a complex maturation process driven by pathogen detection. Although multiple studies have described the analysis of acti…

Authors: Maurizio Ceppi, Giovanna Clavarino, Evelina Gatti, Enrico K Schmidt, Aude de Gassart, Derek Blankenship, Gerald Ogola, Jacques Banchereau, Damien Chaussabel and Philippe Pierre

Citation: Immunome Research 2009 5:5

Published on: 27 November 2009
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Research

A novel paradigm for cell and molecule interaction ontology: from the CMM model to IMGT-ONTOLOGY

Biology is moving fast toward the virtuous circle of other disciplines: from data to quantitative modeling and back to data. Models are usually developed by mathematicians, physicists, and computer scientists …

Authors: Francesco Pappalardo, Marie-Paule Lefranc, Pier-Luigi Lollini and Santo Motta

Citation: Immunome Research 2010 6:1

Published on: 18 February 2010
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Research

Coregulation mapping based on individual phenotypic variation in response to virus infection

Gene coregulation across a population is an important aspect of the considerable variability of the human immune response to virus infection. Methodology to investigate it must rely on a number of ingredients …

Authors: German Nudelman, Yongchao Ge, Jianzhong Hu, Madhu Kumar, Jeremy Seto, Jamie L Duke, Steven H Kleinstein, Fernand Hayot, Stuart C Sealfon and James G Wetmur

Citation: Immunome Research 2010 6:2

Published on: 18 March 2010
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Research

Evolution of a cluster of innate immune genes (β-defensins) along the ancestral lines of chicken and zebra finch

Avian β-defensins (AvBDs) represent a group of innate immune genes with broad antimicrobial activity. Within the chicken genome, previous work identified 14 AvBDs in a cluster on chromosome three. The release …

Authors: Olof Hellgren and Robert Ekblom

Citation: Immunome Research 2010 6:3

Published on: 1 April 2010
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Research

Polyfunctional CD4⁺ T cell responses to a set of pathogenic arenaviruses provide broad population coverage

Several arenaviruses cause severe hemorrhagic fever and aseptic meningitis in humans for which no licensed vaccines are available. A major obstacle for vaccine development is pathogen heterogeneity within the Are…

Authors: Maya F Kotturi, Jason Botten, Matt Maybeno, John Sidney, Jean Glenn, Huynh-Hoa Bui, Carla Oseroff, Shane Crotty, Bjoern Peters, Howard Grey, Daniel M Altmann, Michael J Buchmeier and Alessandro Sette

Citation: Immunome Research 2010 6:4

Published on: 17 May 2010
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Research

Motif prediction to distinguish LPS-stimulated pro-inflammatory vs. antibacterial macrophage genes

Innate immunity is the first line of defence offered by host cells to infections. Macrophage cells involved in innate immunity are stimulated by lipopolysaccharide (LPS), found on bacterial cell surface, to ex…

Authors: Rahul K Kollipara and Narayanan B Perumal

Citation: Immunome Research 2010 6:5

Published on: 21 September 2010
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Proceedings

Stacking and energetic contribution of aromatic islands at the binding interface of antibody proteins

The enrichment and importance of some aromatic residues, such as Tyr and Trp, have been widely noticed at the binding interfaces of antibodies from many experimental and statistical results, some of which were…

Authors: Di Wu, Jing Sun, Tianlei Xu, Shuning Wang, Guoqing Li, Yixue Li and Zhiwei Cao

Citation: Immunome Research 2010 6(Suppl 1):S1

Published on: 27 September 2010
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Proceedings

pDOCK: a new technique for rapid and accurate docking of peptide ligands to Major Histocompatibility Complexes

Identification of antigenic peptide epitopes is an essential prerequisite in T cell-based molecular vaccine design. Computational (sequence-based and structure-based) methods are inexpensive and efficient comp…

Authors: Javed Mohammed Khan and Shoba Ranganathan

Citation: Immunome Research 2010 6(Suppl 1):S2

Published on: 27 September 2010
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Proceedings

Model refinement through high-performance computing: an agent-based HIV example

Recent advances in Immunology highlighted the importance of local properties on the overall progression of HIV infection. In particular, the gastrointestinal tract is seen as a key area during early infection,…

Authors: Dimitri Perrin, Heather J Ruskin and Martin Crane

Citation: Immunome Research 2010 6(Suppl 1):S3

Published on: 27 September 2010
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Proceedings

Clustering-based identification of clonally-related immunoglobulin gene sequence sets

Clonal expansion of B lymphocytes coupled with somatic mutation and antigen selection allow the mammalian humoral immune system to generate highly specific immunoglobulins (IG) or antibodies against invading b…

Authors: Zhiliang Chen, Andrew M Collins, Yan Wang and Bruno A Gaëta

Citation: Immunome Research 2010 6(Suppl 1):S4

Published on: 27 September 2010
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Proceedings

Bioinformatics analysis of Brucellavaccines and vaccine targets using VIOLIN

Brucella spp. are Gram-negative, facultative intracellular bacteria that cause brucellosis, one of the commonest zoonotic diseases found worldwide in humans and a variety of animal species. While several animal v…

Authors: Yongqun He and Zuoshuang Xiang

Citation: Immunome Research 2010 6(Suppl 1):S5

Published on: 27 September 2010
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Proceedings

TAP Hunter: a SVM-based system for predicting TAP ligands using local description of amino acid sequence

Selective peptide transport by the transporter associated with antigen processing (TAP) represents one of the main candidate mechanisms that may regulate the presentation of antigenic peptides to HLA class I m…

Authors: Tze Hau Lam, Hiroshi Mamitsuka, Ee Chee Ren and Joo Chuan Tong

Citation: Immunome Research 2010 6(Suppl 1):S6

Published on: 27 September 2010
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Research

Identification of conformational B-cell Epitopes in an antigen from its primary sequence

One of the major challenges in the field of vaccine design is to predict conformational B-cell epitopes in an antigen. In the past, several methods have been developed for predicting conformational B-cell epit…

Authors: Hifzur Rahman Ansari and Gajendra PS Raghava

Citation: Immunome Research 2010 6:6

Published on: 20 October 2010
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Methodology

An integrated approach to epitope analysis I: Dimensional reduction, visualization and prediction of MHC binding using amino acid principal components and regression approaches

Operation of the immune system is multivariate. Reduction of the dimensionality is essential to facilitate understanding of this complex biological system. One multi-dimensional facet of the immune system is t…

Authors: Robert D Bremel and E Jane Homan

Citation: Immunome Research 2010 6:7

Published on: 2 November 2010
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Research

An integrated approach to epitope analysis II: A system for proteomic-scale prediction of immunological characteristics

Improving our understanding of the immune response is fundamental to developing strategies to combat a wide range of diseases. We describe an integrated epitope analysis system which is based on principal comp…

Authors: Robert D Bremel and E Jane Homan

Citation: Immunome Research 2010 6:8

Published on: 2 November 2010
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Review

Computer aided selection of candidate vaccine antigens

Immunoinformatics is an emergent branch of informatics science that long ago pullulated from the tree of knowledge that is bioinformatics. It is a discipline which applies informatic techniques to problems of …

Authors: Darren R Flower, Isabel K Macdonald, Kamna Ramakrishnan, Matthew N Davies and Irini A Doytchinova

Citation: Immunome Research 2010 6(Suppl 2):S1

Published on: 3 November 2010
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Review

Recent advances in B-cell epitope prediction methods

Identification of epitopes that invoke strong responses from B-cells is one of the key steps in designing effective vaccines against pathogens. Because experimental determination of epitopes is expensive in te…

Authors: Yasser EL-Manzalawy and Vasant Honavar

Citation: Immunome Research 2010 6(Suppl 2):S2

Published on: 3 November 2010
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Review

T-cell epitope prediction and immune complex simulation using molecular dynamics: state of the art and persisting challenges

Atomistic Molecular Dynamics provides powerful and flexible tools for the prediction and analysis of molecular and macromolecular systems. Specifically, it provides a means by which we can measure theoreticall…

Authors: Darren R Flower, Kanchan Phadwal, Isabel K Macdonald, Peter V Coveney, Matthew N Davies and Shunzhou Wan

Citation: Immunome Research 2010 6(Suppl 2):S4

Published on: 3 November 2010
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Review

Applying bioinformatics for antibody epitope prediction using affinity-selected mimotopes – relevance for vaccine design

To properly characterize protective polyclonal antibody responses, it is necessary to examine epitope specificity. Most antibody epitopes are conformational in nature and, thus, cannot be identified using synt…

Authors: Galina F Denisova, Dimitri A Denisov and Jonathan L Bramson

Citation: Immunome Research 2010 6(Suppl 2):S6

Published on: 3 November 2010
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Review

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

Sequence based T-cell epitope predictions have improved immensely in the last decade. From predictions of peptide binding to major histocompatibility complex molecules with moderate accuracy, limited allele co…

Authors: Claus Lundegaard, Ilka Hoof, Ole Lund and Morten Nielsen

Citation: Immunome Research 2010 6(Suppl 2):S3

Published on: 3 November 2010
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Review

Models of RNA virus evolution and their roles in vaccine design

Viruses are fast evolving pathogens that continuously adapt to the highly variable environments they live and reproduce in. Strategies devoted to inhibit virus replication and to control their spread among hos…

Authors: Samuel Ojosnegros and Niko Beerenwinkel

Citation: Immunome Research 2010 6(Suppl 2):S5

Published on: 3 November 2010
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Research

Concept and application of a computational vaccinology workflow

The last years have seen a renaissance of the vaccine area, driven by clinical needs in infectious diseases but also chronic diseases such as cancer and autoimmune disorders. Equally important are technologica…

Authors: Johannes Söllner, Andreas Heinzel, Georg Summer, Raul Fechete, Laszlo Stipkovits, Susan Szathmary and Bernd Mayer

Citation: Immunome Research 2010 6(Suppl 2):S7

Published on: 3 November 2010
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Research

NetMHCIIpan-2.0 – Improved pan-specific HLA-DR predictions using a novel concurrent alignment and weight optimization training procedure

Binding of peptides to Major Histocompatibility class II (MHC-II) molecules play a central role in governing responses of the adaptive immune system. MHC-II molecules sample peptides from the extracellular spa…

Authors: Morten Nielsen, Sune Justesen, Ole Lund, Claus Lundegaard and Søren Buus

Citation: Immunome Research 2010 6:9

Published on: 13 November 2010
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Research

DC-ATLAS: a systems biology resource to dissect receptor specific signal transduction in dendritic cells

The advent of Systems Biology has been accompanied by the blooming of pathway databases. Currently pathways are defined generically with respect to the organ or cell type where a reaction takes place. The cell…

Authors: Duccio Cavalieri, Damariz Rivero, Luca Beltrame, Sonja I Buschow, Enrica Calura, Lisa Rizzetto, Sandra Gessani, Maria C Gauzzi, Walter Reith, Andreas Baur, Roberto Bonaiuti, Marco Brandizi, Carlotta De Filippo, Ugo D’Oro, Sorin Draghici, Isabelle Dunand-Sauthier…

Citation: Immunome Research 2010 6:10

Published on: 19 November 2010
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Research

Automated processing of label-free Raman microscope images of macrophage cells with standardized regression for high-throughput analysis

Macrophages represent the front lines of our immune system; they recognize and engulf pathogens or foreign particles thus initiating the immune response. Imaging macrophages presents unique challenges, as most…

Authors: Robert J Milewski, Yutaro Kumagai, Katsumasa Fujita, Daron M Standley and Nicholas I Smith

Citation: Immunome Research 2010 6:11

Published on: 19 November 2010
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Research

Human immunome, bioinformatic analyses using HLA supermotifs and the parasite genome, binding assays, studies of human T cell responses, and immunization of HLA-A*1101 transgenic mice including novel adjuvants provide a foundation for HLA-A03 restricted CD8⁺T cell epitope based, adjuvanted vaccine protective against Toxoplasma gondii

Toxoplasmosis causes loss of life, cognitive and motor function, and sight. A vaccine is greatly needed to prevent this disease. The purpose of this study was to use an immmunosense approach to develop a found…

Authors: Hua Cong, Ernest J Mui, William H Witola, John Sidney, Jeff Alexander, Alessandro Sette, Ajesh Maewal and Rima McLeod

Citation: Immunome Research 2010 6:12

Published on: 3 December 2010
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Research

Factors important in evolutionary shaping of immunoglobulin gene loci

The extraordinary diversity characterizing the antibody repertoire is generated by both evolution and lymphocyte development. Much of this diversity is due to the existence of immunoglobulin (Ig) variable regi…

Authors: Michal Barak, Guy Eilat, Ron Unger and Ramit Mehr

Citation: Immunome Research 2010 6:13

Published on: 6 December 2010
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