The SARS-CoV-2 spike S375F mutation characterizes the Omicron BA.1 variant

SARS-CoV-2 Omicron-B.1.1.529 leads to widespread escape from neutralizing antibody responses

(2022) Wanwisa Dejnirattisai et al.   CELL

Characterization of the immune resistance of SARS-CoV-2 Mu variant and the robust immunity induced by Mu infection

(2022) Keiya Uriu et al.   JOURNAL OF INFECTIOUS DISEASES

Altered TMPRSS2 usage by SARS-CoV-2 Omicron impacts tropism and fusogenicity

(2022) Bo Meng et al.   NATURE

Considerable escape of SARS-CoV-2 Omicron to antibody neutralization

(2022) Delphine Planas et al.   NATURE

Activity of convalescent and vaccine serum against SARS-CoV-2 Omicron

(2022) Juan Manuel Carreño et al.   NATURE

Broadly neutralizing antibodies overcome SARS-CoV-2 Omicron antigenic shift

(2022) Elisabetta Cameroni et al.   NATURE

Omicron extensively but incompletely escapes Pfizer BNT162b2 neutralization

(2022) Sandile Cele et al.   NATURE

Attenuated fusogenicity and pathogenicity of SARS-CoV-2 Omicron variant

(2022) Rigel Suzuki et al.   NATURE

Omicron escapes the majority of existing SARS-CoV-2 neutralizing antibodies

(2022) Yunlong Cao et al.   NATURE

Striking antibody evasion manifested by the Omicron variant of SARS-CoV-2

(2022) Lihong Liu et al.   NATURE

An infectious SARS-CoV-2 B.1.1.529 Omicron virus escapes neutralization by therapeutic monoclonal antibodies

(2022) Laura A. VanBlargan et al.   NATURE MEDICINE

Efficacy of Antibodies and Antiviral Drugs against Covid-19 Omicron Variant

(2022) Emi Takashita et al.   NEW ENGLAND JOURNAL OF MEDICINE

SARS-CoV-2 Omicron variant: Antibody evasion and cryo-EM structure of spike protein–ACE2 complex

(2022) Dhiraj Mannar et al.   SCIENCE

Virological characteristics of the SARS-CoV-2 Omicron BA.2 spike

(2022) Daichi Yamasoba et al.   CELL

Selection Analysis Identifies Clusters of Unusual Mutational Changes in Omicron Lineage BA.1 That Likely Impact Spike Function

(2022) Darren P. Martin et al.   MOLECULAR BIOLOGY AND EVOLUTION

Structural diversity of the SARS-CoV-2 Omicron spike

(2022) Sophie M.-C. Gobeil et al.   MOLECULAR CELL

Estimated transmissibility and impact of SARS-CoV-2 lineage B.1.1.7 in England

(2021) Nicholas G. Davies et al.   SCIENCE

SARS-CoV-2 D614G spike mutation increases entry efficiency with enhanced ACE2-binding affinity

(2021) Seiya Ozono et al.   Nature Communications

Structural impact on SARS-CoV-2 spike protein by D614G substitution

(2021) Jun Zhang et al.   SCIENCE

Establishment of a reverse genetics system for SARS-CoV-2 using circular polymerase extension reaction

(2021) Shiho Torii et al.   Cell Reports

SARS-CoV-2 spike L452R variant evades cellular immunity and increases infectivity

(2021) Chihiro Motozono et al.   Cell Host & Microbe

SARS-CoV-2 B.1.617 Mutations L452R and E484Q Are Not Synergistic for Antibody Evasion

(2021) Isabella A T M Ferreira et al.   JOURNAL OF INFECTIOUS DISEASES

SARS-CoV-2 variant prediction and antiviral drug design are enabled by RBD in vitro evolution

(2021) Jiří Zahradník et al.   Nature Microbiology

Reduced neutralisation of SARS-CoV-2 omicron B.1.1.529 variant by post-immunisation serum

(2021) Wanwisa Dejnirattisai et al.   LANCET

Enhanced fusogenicity and pathogenicity of SARS-CoV-2 Delta P681R mutation

(2021) Akatsuki Saito et al.   NATURE

Neutralization of the SARS-CoV-2 Mu Variant by Convalescent and Vaccine Serum

(2021) Keiya Uriu et al.   NEW ENGLAND JOURNAL OF MEDICINE

The SARS-CoV-2 Lambda variant exhibits enhanced infectivity and immune resistance

(2021) Izumi Kimura et al.   Cell Reports

A new coronavirus associated with human respiratory disease in China

(2020) Fan Wu et al.   NATURE

Enhanced isolation of SARS-CoV-2 by TMPRSS2-expressing cells

(2020) Shutoku Matsuyama et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Impact of Mutations in SARS-CoV-2 Spike on Viral Infectivity and Antigenicity

(2020) Qianqian Li et al.   CELL

Tracking Changes in SARS-CoV-2 Spike: Evidence that D614G Increases Infectivity of the COVID-19 Virus

(2020) Bette Korber et al.   CELL

Super-rapid quantitation of the production of HIV-1 harboring a luminescent peptide tag

(2020) Seiya Ozono et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Structural and Functional Analysis of the D614G SARS-CoV-2 Spike Protein Variant

(2020) Leonid Yurkovetskiy et al.   CELL

Spike mutation D614G alters SARS-CoV-2 fitness

(2020) Jessica A. Plante et al.   NATURE

OUP accepted manuscript

(2018)   BIOINFORMATICS

Posterior Summarization in Bayesian Phylogenetics Using Tracer 1.7

(2018) Andrew Rambaut et al.   SYSTEMATIC BIOLOGY

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff

(2012) Pablo Cingolani et al.   FLY

Rethinking the term “pi-stacking”

(2012) Chelsea R. Martinez et al.   Chemical Science

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS