Peptide-Based Subunit Vaccine Design of T- and B-Cells Multi-Epitopes against Zika Virus Using Immunoinformatics Approaches

Improved methods for predicting peptide binding affinity to MHC class II molecules

(2018) Kamilla Kjaergaard Jensen et al.   IMMUNOLOGY

In silico epitope mapping and experimental evaluation of the Merozoite Adhesive Erythrocytic Binding Protein (MAEBL) as a malaria vaccine candidate

(2018) Pedro Cravo et al.   MALARIA JOURNAL

Glutathionylation of dengue and Zika NS5 proteins affects guanylyltransferase and RNA dependent RNA polymerase activities

(2018) Chonticha Saisawang et al.   PLoS One

Structural Insights into the Inhibition of Zika Virus NS2B-NS3 Protease by a Small-Molecule Inhibitor

(2018) Yan Li et al.   STRUCTURE

N-glycosylation of Viral E Protein Is the Determinant for Vector Midgut Invasion by Flaviviruses

(2018) Dan Wen et al.   mBio

Monoclonal Antibodies against Zika Virus: Therapeutics and Their Implications for Vaccine Design

(2017) Qihui Wang et al.   JOURNAL OF VIROLOGY

Infection-related microcephaly after the 2015 and 2016 Zika virus outbreaks in Brazil: a surveillance-based analysis

(2017) Wanderson Kleber de Oliveira et al.   LANCET

Outbreak of Zika virus infection in Singapore: an epidemiological, entomological, virological, and clinical analysis

(2017) Zheng Jie Marc Ho et al.   LANCET INFECTIOUS DISEASES

Zika virus evolution and spread in the Americas

(2017) Hayden C. Metsky et al.   NATURE

Dominant protection from HLA-linked autoimmunity by antigen-specific regulatory T cells

(2017) Joshua D. Ooi et al.   NATURE

BepiPred-2.0: improving sequence-based B-cell epitope prediction using conformational epitopes

(2017) Martin Closter Jespersen et al.   NUCLEIC ACIDS RESEARCH

A single mutation in the prM protein of Zika virus contributes to fetal microcephaly

(2017) Ling Yuan et al.   SCIENCE

A human antibody against Zika virus crosslinks the E protein to prevent infection

(2017) S. Saif Hasan et al.   Nature Communications

Discovery of T-cell Driven Subunit Vaccines from Zika Virus Genome: An Immunoinformatics Approach

(2017) Dibyabhaba Pradhan et al.   Interdisciplinary Sciences-Computational Life Sciences

B Cells Are Indispensable for a Novel Mouse Model of Primary Sjögren’s Syndrome

(2017) Junfeng Zheng et al.   Frontiers in Immunology

An Approach for a Synthetic CTL Vaccine Design against Zika Flavivirus Using Class I and Class II Epitopes Identified by Computer Modeling

(2017) Edecio Cunha-Neto et al.   Frontiers in Immunology

Structural Basis of Zika Virus-Specific Antibody Protection

(2016) Haiyan Zhao et al.   CELL

Structures of the Zika Virus Envelope Protein and Its Complex with a Flavivirus Broadly Protective Antibody

(2016) Lianpan Dai et al.   Cell Host & Microbe

Contribution of intertwined loop to membrane association revealed by Zika virus full‐length NS1 structure

(2016) Xiaoying Xu et al.   EMBO JOURNAL

From ZikV genome to vaccine:in silicoapproach for the epitope-based peptide vaccine against Zika virus envelope glycoprotein

(2016) Aftab Alam et al.   IMMUNOLOGY

Computational prediction and analysis of potential antigenic CTL epitopes in Zika virus: A first step towards vaccine development

(2016) Manas R. Dikhit et al.   INFECTION GENETICS AND EVOLUTION

LEADS-PEP: A Benchmark Data Set for Assessment of Peptide Docking Performance

(2016) Alexander Sebastian Hauser et al.   Journal of Chemical Information and Modeling

PEP-FOLD3: fasterde novostructure prediction for linear peptides in solution and in complex

(2016) Alexis Lamiable et al.   NUCLEIC ACIDS RESEARCH

The 3.8 A resolution cryo-EM structure of Zika virus

(2016) D. Sirohi et al.   SCIENCE

Molecular determinants of human neutralizing antibodies isolated from a patient infected with Zika virus

(2016) Q. Wang et al.   Science Translational Medicine

Zika Virus: Two or Three Lineages?

(2016) Zhen Gong et al.   TRENDS IN MICROBIOLOGY

Prediction of promiscuous T-cell epitopes in the Zika virus polyprotein: An in silico approach

(2016) Hamza Dar et al.   Asian Pacific Journal of Tropical Medicine

NetMHCpan-3.0; improved prediction of binding to MHC class I molecules integrating information from multiple receptor and peptide length datasets

(2016) Morten Nielsen et al.   Genome Medicine

Possible Association Between Zika Virus Infection and Microcephaly — Brazil, 2015

(2016) Lavinia Schuler-Faccini et al.   MMWR-MORBIDITY AND MORTALITY WEEKLY REPORT

Phylogenetic analysis revealed the central roles of two African countries in the evolution and worldwide spread of Zika virus

(2016) Shu Shen et al.   VIROLOGICA SINICA

Towards peptide vaccines against Zika virus: Immunoinformatics combined with molecular dynamics simulations to predict antigenic epitopes of Zika viral proteins

(2016) Muhammad Usman Mirza et al.   Scientific Reports

Gapped sequence alignment using artificial neural networks: application to the MHC class I system

(2015) Massimo Andreatta et al.   BIOINFORMATICS

Docking small peptides remains a great challenge: an assessment using AutoDock Vina

(2015) R. Rentzsch et al.   BRIEFINGS IN BIOINFORMATICS

Accurate pan-specific prediction of peptide-MHC class II binding affinity with improved binding core identification

(2015) Massimo Andreatta et al.   IMMUNOGENETICS

An overview of bioinformatics tools for epitope prediction: Implications on vaccine development

(2015) Ruth E. Soria-Guerra et al.   JOURNAL OF BIOMEDICAL INFORMATICS

Mechanistic Basis for Epitope Proofreading in the Peptide-Loading Complex

(2015) Gerda Fleischmann et al.   JOURNAL OF IMMUNOLOGY

First report of autochthonous transmission of Zika virus in Brazil

(2015) Camila Zanluca et al.   MEMORIAS DO INSTITUTO OSWALDO CRUZ

Structural and Computational Biology in the Design of Immunogenic Vaccine Antigens

(2015) Lassi Liljeroos et al.   Journal of Immunology Research

HLA-A*33:01 as Protective Allele for Severe Dengue in a Population of Filipino Children

(2015) Edelwisa Segubre Mercado et al.   PLoS One

Comparison of experimental fine-mapping toin silicoprediction results of HIV-1 epitopes reveals ongoing need for mapping experiments

(2014) Julia Roider et al.   IMMUNOLOGY

CD8+T Cells Prevent Antigen-Induced Antibody-Dependent Enhancement of Dengue Disease in Mice

(2014) Raphaël M. Zellweger et al.   JOURNAL OF IMMUNOLOGY

The immune epitope database (IEDB) 3.0

(2014) Randi Vita et al.   NUCLEIC ACIDS RESEARCH

Experimental Validation of Multi-Epitope Peptides Including Promising MHC Class I- and II-Restricted Epitopes of Four Known Leishmania infantum Proteins

(2014) Maria Agallou et al.   Frontiers in Immunology

PREDIVAC: CD4+ T-cell epitope prediction for vaccine design that covers 95% of HLA class II DR protein diversity

(2013) Patricio Oyarzún et al.   BMC BIOINFORMATICS

Rapid Evolutionary Dynamics of Structural Disorder as a Potential Driving Force for Biological Divergence in Flaviviruses

(2013) Juan F. Ortiz et al.   Genome Biology and Evolution

Identification of Protein Interactions Involved in Cellular Signaling

(2013) Jukka Westermarck et al.   MOLECULAR & CELLULAR PROTEOMICS

Improved Method for Linear B-Cell Epitope Prediction Using Antigen’s Primary Sequence

(2013) Harinder Singh et al.   PLoS One

In Silico Approach for Predicting Toxicity of Peptides and Proteins

(2013) Sudheer Gupta et al.   PLoS One

Comprehensive analysis of dengue virus-specific responses supports an HLA-linked protective role for CD8+ T cells

(2013) D. Weiskopf et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Scorpion venom components that affect ion-channels function

(2013) V. Quintero-Hernández et al.   TOXICON

Properties of MHC Class I Presented Peptides That Enhance Immunogenicity

(2013) Jorg J. A. Calis et al.   PLoS Computational Biology

Reliable B Cell Epitope Predictions: Impacts of Method Development and Improved Benchmarking

(2012) Jens Vindahl Kringelum et al.   PLoS Computational Biology

NetCTLpan: pan-specific MHC class I pathway epitope predictions

(2010) Thomas Stranzl et al.   IMMUNOGENETICS

Susceptible and Protective HLA Class 1 Alleles against Dengue Fever and Dengue Hemorrhagic Fever Patients in a Malaysian Population

(2010) Ramapraba Appanna et al.   PLoS One

Improved side-chain torsion potentials for the Amber ff99SB protein force field

(2010) Kresten Lindorff-Larsen et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

The Complexity of Antibody-Dependent Enhancement of Dengue Virus Infection

(2010) Maria G. Guzman et al.   Viruses-Basel

MolProbity: all-atom structure validation for macromolecular crystallography

(2009) Vincent B. Chen et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

NN-align. An artificial neural network-based alignment algorithm for MHC class II peptide binding prediction

(2009) Morten Nielsen et al.   BMC BIOINFORMATICS

AutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading

(2009) Oleg Trott et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

AutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility

(2009) Garrett M. Morris et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Evaluation of MHC-II peptide binding prediction servers: applications for vaccine research

(2008) Hong Lin et al.   BMC BIOINFORMATICS

Evaluation of MHC class I peptide binding prediction servers: Applications for vaccine research

(2008) Hong Lin et al.   BMC IMMUNOLOGY

NetMHCpan, a method for MHC class I binding prediction beyond humans

(2008) Ilka Hoof et al.   IMMUNOGENETICS

Radius of gyration as an indicator of protein structure compactness

(2008) M. Yu. Lobanov et al.   MOLECULAR BIOLOGY

Structure of the Immature Dengue Virus at Low pH Primes Proteolytic Maturation

(2008) I-M. Yu et al.   SCIENCE

Polymorphisms of HLA genes in Western Javanese (Indonesia): close affinities to Southeast Asian populations

(2008) R. Yuliwulandari et al.   TISSUE ANTIGENS

A Systematic Assessment of MHC Class II Peptide Binding Predictions and Evaluation of a Consensus Approach

(2008) Peng Wang et al.   PLoS Computational Biology

Protective and Enhancing HLA Alleles, HLA-DRB1*0901 and HLA-A*24, for Severe Forms of Dengue Virus Infection, Dengue Hemorrhagic Fever and Dengue Shock Syndrome

(2008) Nguyen Thi Phuong Lan et al.   PLoS Neglected Tropical Diseases