Paired single-cell RNA-seq pre- and post-venetoclax therapy of 8 AML patients
AML samples were collected from diagnostic peripheral blood or bone marrow aspirations at the University Hospitals in Heidelberg or Hannover in accordance with the Declaration of Helsinki and based on institutional approvals after obtaining written informed consent from each patient. The project was approved by the Ethics Committee of the Medical Faculty of Heidelberg (S-169/2017 and S-648/2021) and the local Ethics Review Committee of Hannover Medical School (ethical vote No.7972_BO_K_2018). Mononuclear cells were isolated by density gradient centrifugation using Ficoll Paque Plus (GE Healthcare, cat #GE17-1440-03), and stored in liquid nitrogen until further use. Primary AML cells were stained with cell surface antibodies and sorted for live CD45+ cells in PBS/BSA. scRNA-seq library preparation was performed using the Chromium Single Cell 3' Library and Gel Bead Kit (10X Genomics, cat # 1000128), according to manufacturer's instructions. Five to ten thousand cells were targeted for each sample, and processed according to the 10X Genomics Single Cell 3′ v3.1 protocol to generate the transcriptome libraries. The standard 10x Genomics Chromium Single Cell 3' (v.3.1 chemistry) protocols were carried out according to manufacturer's recommendations for the generation of scRNA-seq libraries.