Gene Expression Tools from a Technical Perspective: Current Approaches and Alternative Solutions for the KnowSeq Suite

The precision and personalized medicine is declared as the next revolutionary paradigm in the current health outlook. With this assumption, many challenges must be faced to achieve that paradigm shift. One of these important challenges is the creation and development of tools with the capability of exploiting biological data to infer or extract new and relevant knowledge. In this sense, these tools must fulfill a set of requirements such as scalability, security and a user-friendly design. That is the way to change the users scope from technicians to all type of researchers, physicians and other non-technical users. Along this article, a review of several gene expression analysis tools has been addressed, with the aim of studying their pros and cons. Then, two different implementations are proposed taking into account the current state of KnowSeq R/Bioc package, with the purpose of showing different use cases to migrate one concrete tool to a web application.