Predicting reservoir hosts and arthropod vectors from evolutionary signatures in RNA virus genomes

Dinucleotide Composition in Animal RNA Viruses Is Shaped More by Virus Family than by Host Species

(2017) Francesca Di Giallonardo et al.   JOURNAL OF VIROLOGY

CG dinucleotide suppression enables antiviral defence targeting non-self RNA

(2017) Matthew A. Takata et al.   NATURE

Host and viral traits predict zoonotic spillover from mammals

(2017) Kevin J. Olival et al.   NATURE

Virus genomes reveal factors that spread and sustained the Ebola epidemic

(2017) Gytis Dudas et al.   NATURE

Comparative analysis estimates the relative frequencies of co-divergence and cross-species transmission within viral families

(2017) Jemma L. Geoghegan et al.   PLoS Pathogens

Real-time, portable genome sequencing for Ebola surveillance

(2016) Joshua Quick et al.   NATURE

Machine Learning in Genomic Medicine: A Review of Computational Problems and Data Sets

(2016) Michael K. K. Leung et al.   PROCEEDINGS OF THE IEEE

Synonymous Virus Genome Recoding as a Tool to Impact Viral Fitness

(2016) Miguel Angel Martínez et al.   TRENDS IN MICROBIOLOGY

Middle East Respiratory Syndrome Coronavirus (MERS-CoV) origin and animal reservoir

(2016) Hamzah A. Mohd et al.   Virology Journal

Codon Pair Bias Is a Direct Consequence of Dinucleotide Bias

(2016) Dusan Kunec et al.   Cell Reports

High Rates of O’Nyong Nyong and Chikungunya Virus Transmission in Coastal Kenya

(2015) A. Desiree LaBeaud et al.   PLoS Neglected Tropical Diseases

Bat Origins of MERS-CoV Supported by Bat Coronavirus HKU4 Usage of Human Receptor CD26

(2014) Qihui Wang et al.   Cell Host & Microbe

Ward’s Hierarchical Agglomerative Clustering Method: Which Algorithms Implement Ward’s Criterion?

(2014) Fionn Murtagh et al.   JOURNAL OF CLASSIFICATION

Evidence for Camel-to-Human Transmission of MERS Coronavirus

(2014) Esam I. Azhar et al.   NEW ENGLAND JOURNAL OF MEDICINE

Receptor usage and cell entry of bat coronavirus HKU4 provide insight into bat-to-human transmission of MERS coronavirus

(2014) Y. Yang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Assembling evidence for identifying reservoirs of infection

(2014) Mafalda Viana et al.   TRENDS IN ECOLOGY & EVOLUTION

Supersize me: how whole-genome sequencing and big data are transforming epidemiology

(2014) Rowland R. Kao et al.   TRENDS IN MICROBIOLOGY

Filoviruses in Bats: Current Knowledge and Future Directions

(2014) Kevin Olival et al.   Viruses-Basel

RNA virus attenuation by codon pair deoptimisation is an artefact of increases in CpG/UpA dinucleotide frequencies

(2014) Fiona Tulloch et al.   eLife

Characterization of a Tembusu Virus Isolated from Naturally Infected House Sparrows (Passer domesticus) in Northern China

(2012) Y. Tang et al.   Transboundary and Emerging Diseases

A Novel Rhabdovirus Associated with Acute Hemorrhagic Fever in Central Africa

(2012) Gilda Grard et al.   PLoS Pathogens

ViPR: an open bioinformatics database and analysis resource for virology research

(2011) Brett E. Pickett et al.   NUCLEIC ACIDS RESEARCH

Use of Nucleotide Composition Analysis To Infer Hosts for Three Novel Picorna-Like Viruses

(2010) A. Kapoor et al.   JOURNAL OF VIROLOGY

Virus-Host Coevolution: Common Patterns of Nucleotide Motif Usage in Flaviviridae and Their Hosts

(2009) Francisco P. Lobo et al.   PLoS One

Virus Attenuation by Genome-Scale Changes in Codon Pair Bias

(2008) J. R. Coleman et al.   SCIENCE

Patterns of Evolution and Host Gene Mimicry in Influenza and Other RNA Viruses

(2008) Benjamin D. Greenbaum et al.   PLoS Pathogens