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. 2020 Mar 3;35(1):47–61. doi: 10.1038/s41375-020-0762-8

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© The Author(s) 2020

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Fig. 1 — HAMLET was developed as a bioinformatics pipeline to call all relevant information for diagnosis and prognosis of AML from raw mRNAseq data. HAMLET integrates four modules using algorithms to detect fusion genes (STARfusion ∩ FusionCatcher), small variants (VARSCAN), large tandem duplications (ReSCU), and gene expression. HAMLET permits immediate AML classification into subtypes according to WHO 2016 or genomic classifications, provides additional prognostic information according to the European Leukemia Net, and identifies molecular targets for therapy.