Integrated genomic surveillance enables tracing of person-to-person SARS-CoV-2 transmission chains during community transmission and reveals extensive onward transmission of travel-imported infections, Germany, June to July 2021

Reconstruction of a large-scale outbreak of SARS-CoV-2 infection in Iceland informs vaccination strategies

(2022) Kristjan E. Hjorleifsson et al.   CLINICAL MICROBIOLOGY AND INFECTION

Characterization of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Infection Clusters Based on Integrated Genomic Surveillance, Outbreak Analysis and Contact Tracing in an Urban Setting

(2021) Andreas Walker et al.   CLINICAL INFECTIOUS DISEASES

MicrobeTrace: Retooling molecular epidemiology for rapid public health response

(2021) Ellsworth M. Campbell et al.   PLoS Computational Biology

Genomics-informed responses in the elimination of COVID-19 in Victoria, Australia: an observational, genomic epidemiological study

(2021) Courtney R Lane et al.   Lancet Public Health

Investigation of three clusters of COVID-19 in Singapore: implications for surveillance and response measures

(2020) Rachael Pung et al.   LANCET

Individual quarantine versus active monitoring of contacts for the mitigation of COVID-19: a modelling study

(2020) Corey M Peak et al.   LANCET INFECTIOUS DISEASES

South Korea's responses to stop the COVID-19 pandemic

(2020) JaHyun Kang et al.   AMERICAN JOURNAL OF INFECTION CONTROL

Genetic structure of SARS-CoV-2 reflects clonal superspreading and multiple independent introduction events, North-Rhine Westphalia, Germany, February and March 2020

(2020) Andreas Walker et al.   Eurosurveillance

A dynamic nomenclature proposal for SARS-CoV-2 lineages to assist genomic epidemiology

(2020) Andrew Rambaut et al.   Nature Microbiology

Impact of delays on effectiveness of contact tracing strategies for COVID-19: a modelling study

(2020) Mirjam E Kretzschmar et al.   Lancet Public Health

The coronavirus is mutating — does it matter?

(2020) Ewen Callaway   NATURE

Genomic epidemiology of superspreading events in Austria reveals mutational dynamics and transmission properties of SARS-CoV-2

(2020) Alexandra Popa et al.   Science Translational Medicine

GISAID: Global initiative on sharing all influenza data – from vision to reality

(2017) Yuelong Shu et al.   Eurosurveillance

Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees

(2016) Ivica Letunic et al.   NUCLEIC ACIDS RESEARCH

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

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