Next-generation sequencing for virus detection: covering all the bases

Comparison of small RNA profiles in Nicotiana benthamiana and Solanum lycopersicum infected by polygonum ringspot tospovirus reveals host-specific responses to viral infection

(2016) Paolo Margaria et al.   VIRUS RESEARCH

Comparative analysis of virus-specific small RNA profiles of three biologically distinct strains of Potato virus Y in infected potato (Solanum tuberosum) cv. Russet Burbank

(2014) Khalid Naveed et al.   VIRUS RESEARCH

Differential Expression of Tomato Spotted Wilt Virus-Derived Viral Small RNAs in Infected Commercial and Experimental Host Plants

(2013) Neena Mitter et al.   PLoS One

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Mapping of the 5′ terminal nucleotides of Grapevine leafroll-associated virus 3 sgRNAs

(2010) Hans J. Maree et al.   VIRUS RESEARCH

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Deep-sequencing of plant viral small RNAs reveals effective and widespread targeting of viral genomes

(2009) Livia Donaire et al.   VIROLOGY

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

(2008) D. R. Zerbino et al.   GENOME RESEARCH