Integrated Omics and Computational Glycobiology Reveal Structural Basis for Influenza A Virus Glycan Microheterogeneity and Host Interactions

XBP1s Links the Unfolded Protein Response to the Molecular Architecture of Mature N-Glycans

(2015) Mahender B. Dewal et al.   CHEMISTRY & BIOLOGY

Enhanced Aromatic Sequons Increase Oligosaccharyltransferase Glycosylation Efficiency and Glycan Homogeneity

(2015) Amber N. Murray et al.   CHEMISTRY & BIOLOGY

Analysis of site-specificN-glycan remodeling in the endoplasmic reticulum and the Golgi

(2015) Ivan Hang et al.   GLYCOBIOLOGY

Glycosylation Analysis of Engineered H3N2 Influenza A Virus Hemagglutinins with Sequentially Added Historically Relevant Glycosylation Sites

(2015) Yanming An et al.   JOURNAL OF PROTEOME RESEARCH

Molecular Characterisation of the Haemagglutinin Glycan-Binding Specificity of Egg-Adapted Vaccine Strains of the Pandemic 2009 H1N1 Swine Influenza A Virus

(2015) Vincenzo Carbone et al.   MOLECULES

Glycosylation at hemagglutinin Asn-167 protects the H6N1 avian influenza virus from tryptic cleavage at Arg-201 and maintains the viral infectivity

(2015) Jie-Long He et al.   VIRUS RESEARCH

New Glycoproteomics Software, GlycoPep Evaluator, Generates Decoy Glycopeptides de Novo and Enables Accurate False Discovery Rate Analysis for Small Data Sets

(2014) Zhikai Zhu et al.   ANALYTICAL CHEMISTRY

Advances in LC–MS/MS-based glycoproteomics: Getting closer to system-wide site-specific mapping of the N- and O-glycoproteome

(2014) Morten Thaysen-Andersen et al.   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

Confident Assignment of Site-Specific Glycosylation in Complex Glycoproteins in a Single Step

(2014) Kshitij Khatri et al.   JOURNAL OF PROTEOME RESEARCH

A predictive fitness model for influenza

(2014) Marta Łuksza et al.   NATURE

Alzheimer's Associated β-Amyloid Protein Inhibits Influenza A Virus and Modulates Viral Interactions with Phagocytes

(2014) Mitchell R. White et al.   PLoS One

Vaccination of monoglycosylated hemagglutinin induces cross-strain protection against influenza virus infections

(2014) J.-R. Chen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Playing Hide and Seek: How Glycosylation of the Influenza Virus Hemagglutinin Can Modulate the Immune Response to Infection

(2014) Michelle Tate et al.   Viruses-Basel

Conserved and host-specific features of influenza virion architecture

(2014) Edward C. Hutchinson et al.   Nature Communications

Biogenesis of Influenza A Virus Hemagglutinin Cross-Protective Stem Epitopes

(2014) Javier G. Magadán et al.   PLoS Pathogens

Absolute Quantitation of Immunoglobulin G and Its Glycoforms Using Multiple Reaction Monitoring

(2013) Qiuting Hong et al.   ANALYTICAL CHEMISTRY

Molecular Mechanisms of Inhibition of Influenza by Surfactant Protein D Revealed by Large-Scale Molecular Dynamics Simulation

(2013) Boon Chong Goh et al.   BIOCHEMISTRY

N-linked protein glycosylation in the ER

(2013) Markus Aebi   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH

Structural Determinants for Naturally Evolving H5N1 Hemagglutinin to Switch Its Receptor Specificity

(2013) Kannan Tharakaraman et al.   CELL

The amazing innate immune response to influenza A virus infection

(2013) Shweta Tripathi et al.   Innate Immunity

PTRAJ and CPPTRAJ: Software for Processing and Analysis of Molecular Dynamics Trajectory Data

(2013) Daniel R. Roe et al.   Journal of Chemical Theory and Computation

Routine Microsecond Molecular Dynamics Simulations with AMBER on GPUs. 2. Explicit Solvent Particle Mesh Ewald

(2013) Romelia Salomon-Ferrer et al.   Journal of Chemical Theory and Computation

Importance of ligand conformational energies in carbohydrate docking: Sorting the wheat from the chaff

(2013) Anita K. Nivedha et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

A Single Amino Acid Substitution in the Hemagglutinin of H3N2 Subtype Influenza A Viruses Is Associated with Resistance to the Long Pentraxin PTX3 and Enhanced Virulence in Mice

(2013) E. R. Job et al.   JOURNAL OF IMMUNOLOGY

N-Linked Glycosylation of the Hemagglutinin Protein Influences Virulence and Antigenicity of the 1918 Pandemic and Seasonal H1N1 Influenza A Viruses

(2013) X. Sun et al.   JOURNAL OF VIROLOGY

Glycopeptide Analysis, Recent Developments and Applications

(2013) Heather Desaire   MOLECULAR & CELLULAR PROTEOMICS

Pathways to human adaptation

(2013) David A. Steinhauer   NATURE

Glycosylation on Hemagglutinin Affects the Virulence and Pathogenicity of Pandemic H1N1/2009 Influenza A Virus in Mice

(2013) Yan Zhang et al.   PLoS One

Production and stabilization of the trimeric influenza hemagglutinin stem domain for potentially broadly protective influenza vaccines

(2013) Y. Lu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Preferential Recognition of Avian-Like Receptors in Human Influenza A H7N9 Viruses

(2013) R. Xu et al.   SCIENCE

Glycosylations in the Globular Head of the Hemagglutinin Protein Modulate the Virulence and Antigenic Properties of the H1N1 Influenza Viruses

(2013) R. A. Medina et al.   Science Translational Medicine

Antigenically intact hemagglutinin in circulating avian and swine influenza viruses and potential for H3N2 pandemic

(2013) Kannan Tharakaraman et al.   Scientific Reports

Software for automated interpretation of mass spectrometry data from glycans and glycopeptides

(2012) Carrie L. Woodin et al.   ANALYST

Glycosylation at Asn91of H1N1 haemagglutinin affects binding to glycan receptors

(2012) Akila Jayaraman et al.   BIOCHEMICAL JOURNAL

Automated glycopeptide analysis--review of current state and future directions

(2012) D. C. Dallas et al.   BRIEFINGS IN BIOINFORMATICS

Influenza Research Database: an integrated bioinformatics resource for influenza research and surveillance

(2012) R. Burke Squires et al.   Influenza and Other Respiratory Viruses

A Unique Sugar-binding Site Mediates the Distinct Anti-influenza Activity of Pig Surfactant Protein D

(2012) Martin van Eijk et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Routine Microsecond Molecular Dynamics Simulations with AMBER on GPUs. 1. Generalized Born

(2012) Andreas W. Götz et al.   Journal of Chemical Theory and Computation

Toward Animal Cell Culture-Based Influenza Vaccine Design: Viral Hemagglutinin N-Glycosylation Markedly Impacts Immunogenicity

(2012) J. Hutter et al.   JOURNAL OF IMMUNOLOGY

Semi-Automated Identification of N-Glycopeptides by Hydrophilic Interaction Chromatography, nano-Reverse-Phase LC–MS/MS, and Glycan Database Search

(2012) Petr Pompach et al.   JOURNAL OF PROTEOME RESEARCH

GlycReSoft: A Software Package for Automated Recognition of Glycans from LC/MS Data

(2012) Evan Maxwell et al.   PLoS One

Influenza-Infected Neutrophils within the Infected Lungs Act as Antigen Presenting Cells for Anti-Viral CD8+ T Cells

(2012) Matthew M. Hufford et al.   PLoS One

Mutagenesis of Surfactant Protein D Informed by Evolution and X-ray Crystallography Enhances Defenses against Influenza A Virusin Vivo

(2011) Erika Crouch et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

PEAKS DB:De NovoSequencing Assisted Database Search for Sensitive and Accurate Peptide Identification

(2011) Jing Zhang et al.   MOLECULAR & CELLULAR PROTEOMICS

Fitness costs limit influenza A virus hemagglutinin glycosylation as an immune evasion strategy

(2011) S. R. Das et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The ability of pandemic influenza virus hemagglutinins to induce lower respiratory pathology is associated with decreased surfactant protein D binding

(2011) Li Qi et al.   VIROLOGY

Pandemic H1N1 Influenza A Viruses Are Resistant to the Antiviral Activities of Innate Immune Proteins of the Collectin and Pentraxin Superfamilies

(2010) E. R. Job et al.   JOURNAL OF IMMUNOLOGY

A survey of computational methods and error rate estimation procedures for peptide and protein identification in shotgun proteomics

(2010) Alexey I. Nesvizhskii   Journal of Proteomics

mzML—a Community Standard for Mass Spectrometry Data

(2010) Lennart Martens et al.   MOLECULAR & CELLULAR PROTEOMICS

Colorectal Cancer-Specific Cytochrome P450 2W1: Intracellular Localization, Glycosylation, and Catalytic Activity

(2010) A. Gomez et al.   MOLECULAR PHARMACOLOGY

GlycomeDB--a unified database for carbohydrate structures

(2010) R. Ranzinger et al.   NUCLEIC ACIDS RESEARCH

Finding new posttranslational modifications in salivary proline-rich proteins

(2010) Rui Vitorino et al.   PROTEOMICS

Cross-Neutralization of 1918 and 2009 Influenza Viruses: Role of Glycans in Viral Evolution and Vaccine Design

(2010) C.-J. Wei et al.   Science Translational Medicine

The influenza A virus hemagglutinin glycosylation state affects receptor-binding specificity

(2010) Robert P. de Vries et al.   VIROLOGY

Glycosylation Focuses Sequence Variation in the Influenza A Virus H1 Hemagglutinin Globular Domain

(2010) Suman R. Das et al.   PLoS Pathogens

Software Tool for Researching Annotations of Proteins: Open-Source Protein Annotation Software with Data Visualization

(2009) Vivek N. Bhatia et al.   ANALYTICAL CHEMISTRY

Improved Hydrophilic Interaction Chromatography LC/MS of Heparinoids Using a Chip with Postcolumn Makeup Flow

(2009) Gregory O. Staples et al.   ANALYTICAL CHEMISTRY

Recognition of Mannosylated Ligands and Influenza A Virus by Human Surfactant Protein D: Contributions of an Extended Site and Residue 343†,‡

(2009) Erika Crouch et al.   BIOCHEMISTRY

Decon2LS: An open-source software package for automated processing and visualization of high resolution mass spectrometry data

(2009) Navdeep Jaitly et al.   BMC BIOINFORMATICS

Determination of glycosylation sites and site-specific heterogeneity in glycoproteins

(2009) Hyun Joo An et al.   CURRENT OPINION IN CHEMICAL BIOLOGY

Darwinian selection for sites of Asn-linked glycosylation in phylogenetically disparate eukaryotes and viruses

(2009) J. Cui et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

ProteoWizard: open source software for rapid proteomics tools development

(2008) Darren Kessner et al.   BIOINFORMATICS

GlycomeDB – integration of open-access carbohydrate structure databases

(2008) René Ranzinger et al.   BMC BIOINFORMATICS

Innate immunity to influenza virus: implications for future therapy

(2008) Mitchell R White et al.   Expert Review of Clinical Immunology

N-Glycoproteomics – An automated workflow approach

(2008) Sakari Joenväärä et al.   GLYCOBIOLOGY

When can glycopeptides be assigned based solely on high-resolution mass spectrometry data?

(2008) Heather Desaire et al.   INTERNATIONAL JOURNAL OF MASS SPECTROMETRY

Glycosylation of Asn-76 in mouse GPIHBP1 is critical for its appearance on the cell surface and the binding of chylomicrons and lipoprotein lipase

(2008) Anne P. Beigneux et al.   JOURNAL OF LIPID RESEARCH

Recent Avian H5N1 Viruses Exhibit Increased Propensity for Acquiring Human Receptor Specificity

(2008) James Stevens et al.   JOURNAL OF MOLECULAR BIOLOGY

Changing Selective Pressure during Antigenic Changes in Human Influenza H3

(2008) Benjamin P. Blackburne et al.   PLoS Pathogens

Assigning Significance to Peptides Identified by Tandem Mass Spectrometry Using Decoy Databases

(2007) Lukas Käll et al.   JOURNAL OF PROTEOME RESEARCH