DZNE and University of Bonn 1 article published in JoVE Biology Cost-Efficient Transcriptomic-Based Drug Screening Jacqueline Leidner1,2, Heidi Theis3, Michael Kraut3, Alice Ragogna1, Marc Beyer1,3,4, Joachim Schultze1,2,3, Jonas Schulte-Schrepping1,2, Caterina Carraro1,2, Lorenzo Bonaguro1,2 1Systems Medicine, German Center for Neurodegenerative Diseases (DZNE) eV., 2Genomics & Immunoregulation, LIMES Institute, University of Bonn, 3PRECISE Platform for Single Cell Genomics and Epigenomics, DZNE and University of Bonn, 4Immunogenomics & Neurodegeneration, German Center for Neurodegenerative Diseases (DZNE) eV. This protocol describes a workflow from ex vivo or in vitro cell cultures to transcriptomic data pre-processing for cost-effective transcriptome-based drug screening.