Since the mapping of the human genome and the advent of next-generation sequencing technology thorough examination of the cancer genome has become a reality. Over the last few years several studies have used next-generation sequencing technology to investigate the genetic landscape of Hodgkin and non-Hodgkin lymphomas, identifying novel genetic mutations and gene rearrangements that have shed new light on the underlying tumor biology in these diseases as well as identifying possible targets for directed therapy. This review covers the major discoveries in lymphoma using next-generation sequencing technology.