Relative infectivity of the SARS-CoV-2 Omicron variant in human alveolar cells

Receptor binding and complex structures of human ACE2 to spike RBD from omicron and delta SARS-CoV-2

(2022) Pengcheng Han et al.   CELL

Generation time of the alpha and delta SARS-CoV-2 variants: an epidemiological analysis

(2022) William S Hart et al.   LANCET INFECTIOUS DISEASES

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

(2022) Bo Meng et al.   NATURE

SARS-CoV-2 Omicron variant replication in human bronchus and lung ex vivo

(2022) Kenrie P. Y. Hui et al.   NATURE

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

(2022) Rigel Suzuki et al.   NATURE

SARS-CoV-2 spike D614G change enhances replication and transmission

(2021) Bin Zhou et al.   NATURE

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 Delta VOC in Scotland: demographics, risk of hospital admission, and vaccine effectiveness

(2021) Aziz Sheikh et al.   LANCET

Hospital admission and emergency care attendance risk for SARS-CoV-2 delta (B.1.617.2) compared with alpha (B.1.1.7) variants of concern: a cohort study

(2021) Katherine A Twohig et al.   LANCET INFECTIOUS DISEASES

SARS-CoV-2 immune evasion by the B.1.427/B.1.429 variant of concern

(2021) Matthew McCallum et al.   SCIENCE

The N501Y spike substitution enhances SARS-CoV-2 infection and transmission

(2021) Yang Liu et al.   NATURE

Enhanced fitness of SARS-CoV-2 variant of concern Alpha but not Beta

(2021) Lorenz Ulrich et al.   NATURE

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

(2021) Akatsuki Saito et al.   NATURE

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

(2021) Matthew McCallum et al.   SCIENCE

The Architecture of SARS-CoV-2 Transcriptome

(2020) Dongwan Kim et al.   CELL

Single-cell RNA counting at allele and isoform resolution using Smart-seq3

(2020) Michael Hagemann-Jensen et al.   NATURE BIOTECHNOLOGY

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

(2020) Bette Korber et al.   CELL

Three-dimensional human alveolar stem cell culture models reveal infection response to SARS-CoV-2

(2020) Jeonghwan Youk et al.   Cell Stem Cell

The UCSC SARS-CoV-2 Genome Browser

(2020) Jason D. Fernandes et al.   NATURE GENETICS

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

Nextstrain: real-time tracking of pathogen evolution

(2018) James Hadfield et al.   BIOINFORMATICS

OUP accepted manuscript

(2018)   BIOINFORMATICS

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration

(2012) H. Thorvaldsdottir et al.   BRIEFINGS IN BIOINFORMATICS

VarScan 2: Somatic mutation and copy number alteration discovery in cancer by exome sequencing

(2012) D. C. Koboldt et al.   GENOME RESEARCH

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS