Molecular fingerprints for bone marrow cells, myelodysplastic syndrome and aplastic anemia

The overall goal of this study was to characterize bone marrow cells based on their transcriptome, surface protein expression and BCR- and TCR VDJ-profile across disease diagnosis for accurate identification of clinically relevant cell states. This project has received funding from the European Union Horizon 2020 research and innovation programme under grant agreement No 824110 (EASI-Genomics). CITE-seq (scRNA-seq, scADT-seq) and scVDJ-seq samples were generated from bone marrow mononuclear cells using the 10X Genomics Chromium platform and protocols. Bone marrow samples were retrieved from The Finnish Hematology Registry and Clinical Biobank (FHRB, adult donors). A mix of three leukemia cell lines (Nalm-6, HL-60, Jurkat) were used as control to assess reproducibility across sample preparation batches. Single cell suspensions representing sample pools (2-3 per pool) were loaded to Chromium Controller instrument and processed for sequencing. Sample annotation follows tissue term ontology from EFO https://www.ebi.ac.uk/efo/ *************************************************************** Raw fastq files are available from the FHRB Biobank. Since the data corresponds to sequencing reads and includes sensitive patient information, it will only be shared through a controlled-access data repository, in accordance with ethical consents. ***************************************************************