GlycoGrip: Cell Surface-Inspired Universal Sensor for Betacoronaviruses

Binding of the SARS-CoV-2 Spike Protein to Glycans

(2021) Wei Hao et al.   Science Bulletin

Elucidating the Interactions Between Heparin/Heparan Sulfate and SARS-CoV-2-Related Proteins—An Important Strategy for Developing Novel Therapeutics for the COVID-19 Pandemic

(2021) Mingjia Yu et al.   Frontiers in Molecular Biosciences

Clarifying the evidence on SARS-CoV-2 antigen rapid tests in public health responses to COVID-19

(2021) Michael J Mina et al.   LANCET

Put to the test: use of rapid testing technologies for covid-19

(2021) Alex Crozier et al.   BMJ-British Medical Journal

Testing at scale during the COVID-19 pandemic

(2021) Tim R. Mercer et al.   NATURE REVIEWS GENETICS

Infection and transmission of SARS‐CoV‐2 depend on heparan sulfate proteoglycans

(2021) Marta Bermejo‐Jambrina et al.   EMBO JOURNAL

Natural isolate and recombinant SARS-CoV-2 rapidly evolve in vitro to higher infectivity through more efficient binding to heparan sulfate and reduced S1/S2 cleavage.

(2021) Nikita Shiliaev et al.   JOURNAL OF VIROLOGY

SARS-CoV-2 simulations go exascale to predict dramatic spike opening and cryptic pockets across the proteome

(2021) Maxwell I. Zimmerman et al.   Nature Chemistry

A glycan gate controls opening of the SARS-CoV-2 spike protein

(2021) Terra Sztain et al.   Nature Chemistry

Effect of natural mutations of SARS-CoV-2 on spike structure, conformation, and antigenicity

(2021) Sophie M.-C. Gobeil et al.   SCIENCE

Heparan Sulfate Proteoglycans as Attachment Factor for SARS-CoV-2

(2021) Lin Liu et al.   ACS Central Science

Heparan Sulfate Facilitates Spike Protein-Mediated SARS-CoV-2 Host Cell Invasion and Contributes to Increased Infection of SARS-CoV-2 G614 Mutant and in Lung Cancer

(2021) Jingwen Yue et al.   Frontiers in Molecular Biosciences

Molecular basis of immune evasion by the Delta and Kappa SARS-CoV-2 variants

(2021) Matthew McCallum et al.   SCIENCE

Fine-tuning the spike: role of the nature and topology of the glycan shield in the structure and dynamics of the SARS-CoV-2 S

(2021) Aoife M. Harbison et al.   Chemical Science

On the Selectivity of Heparan Sulfate Recognition by SARS-CoV-2 Spike Glycoprotein

(2021) John E. Chittum et al.   ACS Medicinal Chemistry Letters

Structural basis for the recognition of the SARS-CoV-2 by full-length human ACE2

(2020) Renhong Yan et al.   SCIENCE

Structure, Function, and Antigenicity of the SARS-CoV-2 Spike Glycoprotein

(2020) Alexandra C. Walls et al.   CELL

The pivotal link between ACE2 deficiency and SARS-CoV-2 infection

(2020) Paolo Verdecchia et al.   European Journal of Internal Medicine

Structure of the SARS-CoV-2 spike receptor-binding domain bound to the ACE2 receptor

(2020) Jun Lan et al.   NATURE

Site-specific glycan analysis of the SARS-CoV-2 spike

(2020) Yasunori Watanabe et al.   SCIENCE

A highly conserved cryptic epitope in the receptor binding domains of SARS-CoV-2 and SARS-CoV

(2020) Meng Yuan et al.   SCIENCE

Initial Step of Virus Entry: Virion Binding to Cell-Surface Glycans

(2020) Melanie Koehler et al.   Annual Review of Virology

Use of Saliva for Diagnosis and Monitoring the SARS-CoV-2: A General Perspective

(2020) Jose J. Ceron et al.   Journal of Clinical Medicine

The Emerging Role of the Mammalian Glycocalyx in Functional Membrane Organization and Immune System Regulation

(2020) Leonhard Möckl   Frontiers in Cell and Developmental Biology

Structures of Human Antibodies Bound to SARS-CoV-2 Spike Reveal Common Epitopes and Recurrent Features of Antibodies

(2020) Christopher O. Barnes et al.   CELL

Scalable molecular dynamics on CPU and GPU architectures with NAMD

(2020) James C. Phillips et al.   JOURNAL OF CHEMICAL PHYSICS

Structure of Furin Protease Binding to SARS-CoV-2 Spike Glycoprotein and Implications for Potential Targets and Virulence

(2020) Naveen Vankadari   Journal of Physical Chemistry Letters

A neutralizing human antibody binds to the N-terminal domain of the Spike protein of SARS-CoV-2

(2020) Xiangyang Chi et al.   SCIENCE

Studies in humanized mice and convalescent humans yield a SARS-CoV-2 antibody cocktail

(2020) Johanna Hansen et al.   SCIENCE

Characterization of heparin and severe acute respiratory syndrome-related coronavirus 2 (SARS-CoV-2) spike glycoprotein binding interactions

(2020) So Young Kim et al.   ANTIVIRAL RESEARCH

Recognition of the SARS-CoV-2 receptor binding domain by neutralizing antibodies

(2020) Meng Yuan et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

SARS-CoV-2 Infection Depends on Cellular Heparan Sulfate and ACE2

(2020) Thomas Mandel Clausen et al.   CELL

Higher binding affinity of Furin to SARS-CoV-2 spike (S) protein D614G could be associated with higher SARS-CoV-2 infectivity

(2020) Anwar Mohammad et al.   INTERNATIONAL JOURNAL OF INFECTIOUS DISEASES

Tutorial: design and fabrication of nanoparticle-based lateral-flow immunoassays

(2020) Claudio Parolo et al.   Nature Protocols

Saliva or Nasopharyngeal Swab Specimens for Detection of SARS-CoV-2

(2020) Anne L. Wyllie et al.   NEW ENGLAND JOURNAL OF MEDICINE

Structural analysis of full-length SARS-CoV-2 spike protein from an advanced vaccine candidate

(2020) Sandhya Bangaru et al.   SCIENCE

Analysis of the SARS-CoV-2 spike protein glycan shield reveals implications for immune recognition

(2020) Oliver C. Grant et al.   Scientific Reports

Beyond Shielding: The Roles of Glycans in the SARS-CoV-2 Spike Protein

(2020) Lorenzo Casalino et al.   ACS Central Science

COVID19 - Computational Chemists Meet the Moment

(2020) Adrian J. Mulholland et al.   Journal of Chemical Information and Modeling

Heparin Inhibits Cellular Invasion by SARS-CoV-2: Structural Dependence of the Interaction of the Spike S1 Receptor-Binding Domain with Heparin

(2020) Courtney J. Mycroft-West et al.   THROMBOSIS AND HAEMOSTASIS

SARS-CoV-2 Inhibition by Sulfonated Compounds

(2020) Matteo Gasbarri et al.   Microorganisms

The flexibility of ACE2 in the context of SARS-CoV-2 infection

(2020) Emilia P. Barros et al.   BIOPHYSICAL JOURNAL

Virus recognition of glycan receptors

(2019) Andrew J Thompson et al.   Current Opinion in Virology

Hydroxyl Groups in Synthetic and Natural-Product-Derived Therapeutics: A Perspective on a Common Functional Group

(2019) Jonathan Cramer et al.   JOURNAL OF MEDICINAL CHEMISTRY

Specific detection of avian influenza H5N2 whole virus particles on lateral flow strips using a pair of sandwich-type aptamers

(2019) Sang Hoon Kim et al.   BIOSENSORS & BIOELECTRONICS

Rapid Detection of Rongalite via a Sandwich Lateral Flow Strip Assay Using a Pair of Aptamers

(2018) Jie Li et al.   Nanoscale Research Letters

MatrixDB: integration of new data with a focus on glycosaminoglycan interactions

(2018) Olivier Clerc et al.   NUCLEIC ACIDS RESEARCH

The sensitive detection of ODAM by using sandwich-type biosensors with a cognate pair of aptamers for the early diagnosis of periodontal disease

(2018) Bang Hyun Lee et al.   BIOSENSORS & BIOELECTRONICS

Predicting glycosaminoglycan surface protein interactions and implications for studying axonal growth

(2017) Adam R. Griffith et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Improvements to the APBS biomolecular solvation software suite

(2017) Elizabeth Jurrus et al.   PROTEIN SCIENCE

Lateral flow assays

(2016) K. M. Koczula et al.   Essays in Biochemistry

Estimating glycosaminoglycan–protein interaction affinity: water dominates the specific antithrombin–heparin interaction

(2016) Aurijit Sarkar et al.   GLYCOBIOLOGY

CHARMM36m: an improved force field for folded and intrinsically disordered proteins

(2016) Jing Huang et al.   NATURE METHODS

Lateral-flow technology: From visual to instrumental

(2016) Wing Cheung Mak et al.   TRAC-TRENDS IN ANALYTICAL CHEMISTRY

Demystifying Heparan Sulfate–Protein Interactions

(2014) Ding Xu et al.   Annual Review of Biochemistry

Human Coronavirus NL63 Utilizes Heparan Sulfate Proteoglycans for Attachment to Target Cells

(2014) A. Milewska et al.   JOURNAL OF VIROLOGY

MatrixDB, the extracellular matrix interaction database: updated content, a new navigator and expanded functionalities

(2014) G. Launay et al.   NUCLEIC ACIDS RESEARCH

Glycan Engagement by Viruses: Receptor Switches and Specificity

(2014) Luisa J. Ströh et al.   Annual Review of Virology

CHARMM36 all-atom additive protein force field: Validation based on comparison to NMR data

(2013) Jing Huang et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Protein and ligand preparation: parameters, protocols, and influence on virtual screening enrichments

(2013) G. Madhavi Sastry et al.   JOURNAL OF COMPUTER-AIDED MOLECULAR DESIGN

Paper-based microfluidic point-of-care diagnostic devices

(2013) Ali Kemal Yetisen et al.   LAB ON A CHIP

Human Immunodeficiency Virus and Heparan Sulfate: From Attachment to Entry Inhibition

(2013) Bridgette J. Connell et al.   Frontiers in Immunology

Improved Treatment of Ligands and Coupling Effects in Empirical Calculation and Rationalization of pKaValues

(2011) Chresten R. Søndergaard et al.   Journal of Chemical Theory and Computation

PROPKA3: Consistent Treatment of Internal and Surface Residues in Empirical pKaPredictions

(2011) Mats H. M. Olsson et al.   Journal of Chemical Theory and Computation

Glycan reader: Automated sugar identification and simulation preparation for carbohydrates and glycoproteins

(2011) Sunhwan Jo et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Heparan Sulfate Proteoglycans

(2011) S. Sarrazin et al.   Cold Spring Harbor Perspectives in Biology

MatrixDB, the extracellular matrix interaction database

(2010) E. Chautard et al.   NUCLEIC ACIDS RESEARCH

MatrixDB, a database focused on extracellular protein–protein and protein–carbohydrate interactions

(2009) Emilie Chautard et al.   BIOINFORMATICS

Free energy calculations of glycosaminoglycan–protein interactions

(2009) Neha S Gandhi et al.   GLYCOBIOLOGY

CHARMM Additive All-Atom Force Field for Glycosidic Linkages between Hexopyranoses

(2009) Olgun Guvench et al.   Journal of Chemical Theory and Computation

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

Lateral flow (immuno)assay: its strengths, weaknesses, opportunities and threats. A literature survey

(2008) Geertruida A. Posthuma-Trumpie et al.   ANALYTICAL AND BIOANALYTICAL CHEMISTRY

CHARMM-GUI: A web-based graphical user interface for CHARMM

(2008) Sunhwan Jo et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Cleavage of Group 1 Coronavirus Spike Proteins: How Furin Cleavage Is Traded Off against Heparan Sulfate Binding upon Cell Culture Adaptation

(2008) C. A. M. de Haan et al.   JOURNAL OF VIROLOGY

Membrane lipids: where they are and how they behave

(2008) Gerrit van Meer et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY