A Comparison of Whole Genome Sequencing of SARS-CoV-2 Using Amplicon-Based Sequencing, Random Hexamers, and Bait Capture

Molecular Diagnosis of a Novel Coronavirus (2019-nCoV) Causing an Outbreak of Pneumonia

(2020) Daniel K W Chu et al.   CLINICAL CHEMISTRY

Genomic characterisation and epidemiology of 2019 novel coronavirus: implications for virus origins and receptor binding

(2020) Roujian Lu et al.   LANCET

Clinical features of patients infected with 2019 novel coronavirus in Wuhan, China

(2020) Chaolin Huang et al.   LANCET

An interactive web-based dashboard to track COVID-19 in real time

(2020) Ensheng Dong et al.   LANCET INFECTIOUS DISEASES

A pneumonia outbreak associated with a new coronavirus of probable bat origin

(2020) Peng Zhou et al.   NATURE

A Novel Coronavirus from Patients with Pneumonia in China, 2019

(2020) Na Zhu et al.   NEW ENGLAND JOURNAL OF MEDICINE

Discovery of Bat Coronaviruses through Surveillance and Probe Capture-Based Next-Generation Sequencing

(2020) Bei Li et al.   mSphere

Diagnosis and Management of First Case of COVID-19 in Canada: Lessons applied from SARS

(2020) Xavier Marchand-Senécal et al.   CLINICAL INFECTIOUS DISEASES

Detection of SARS-CoV-2 in Different Types of Clinical Specimens

(2020) Wenling Wang et al.   JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION

Comparison of Copan ESwab and FLOQSwab for COVID-19 Diagnosis: Working around a Supply Shortage

(2020) Christie Vermeiren et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Comparative Performance of SARS-CoV-2 Detection Assays Using Seven Different Primer-Probe Sets and One Assay Kit

(2020) Arun K. Nalla et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Spread of SARS-CoV-2 in the Icelandic Population

(2020) Daniel F. Gudbjartsson et al.   NEW ENGLAND JOURNAL OF MEDICINE

Real-time PCR-based SARS-CoV-2 detection in Canadian laboratories

(2020) Jason J. LeBlanc et al.   JOURNAL OF CLINICAL VIROLOGY

Multiple approaches for massively parallel sequencing of SARS-CoV-2 genomes directly from clinical samples

(2020) Minfeng Xiao et al.   Genome Medicine

Capturing sequence diversity in metagenomes with comprehensive and scalable probe design

(2019) Hayden C. Metsky et al.   NATURE BIOTECHNOLOGY

Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype

(2019) Daehwan Kim et al.   NATURE BIOTECHNOLOGY

Multiplex PCR method for MinION and Illumina sequencing of Zika and other virus genomes directly from clinical samples

(2017) Joshua Quick et al.   Nature Protocols

Detecting rare structural variation in evolving microbial populations from new sequence junctions using breseq

(2015) Daniel E. Deatherage et al.   Frontiers in Genetics

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

QUAST: quality assessment tool for genome assemblies

(2013) Alexey Gurevich et al.   BIOINFORMATICS

Isolation of a Novel Coronavirus from a Man with Pneumonia in Saudi Arabia

(2012) Ali M. Zaki et al.   NEW ENGLAND JOURNAL OF MEDICINE

Specific Capture and Whole-Genome Sequencing of Viruses from Clinical Samples

(2011) Daniel P. Depledge et al.   PLoS One

Influenza Virus Evolution, Host Adaptation, and Pandemic Formation

(2010) Jeffery K. Taubenberger et al.   Cell Host & Microbe