Methodology

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Coding refers to the act of writing instructions in a programming language. In that sense, the coder is also a programmer. Since a program in a computer is a set of instructions to execute specific tasks. Thus, a programmer is never alone, he is always working at the very least with the computer. Moreover, every program must serve a clear purpose: automating a routine task, performing repetitive or complex calculations, managing data, and so on. In bioinformatics, such programs are typically designed to transform raw biological data into formats that can be effectively used by other specialists for further analysis.

One of the approaches to study host–pathogen interactions at the molecular level is RNA sequencing (RNA-Seq). This technology provides access to gene expression profiles in various conditions such as viral infection or environmental stress. I had the opportunity to process RNA-Seq data from sugar beet plants to investigate transcriptional responses to virus yellows disease, a condition caused by a complex of aphid-transmissible viruses. Here, I describe transcriptomics and the methods used for RNA-Seq data analysis.