Kockwelp, Jacqueline; Thiele, Sebastian; Bartsch, Jannis; Haalck, Lars; Gromoll, Jörg; Schlatt, Stefan; Exeler, Rita; Bleckmann, Annalen; Lenz, Georg; Wolf, Sebastian; Steffen, Björn; Berdel, Wolfgang Eduard; Schliemann, Christoph; Risse, Benjamin; Angenendt, Linus
Forschungsartikel (Zeitschrift) | Peer reviewedThe detection of genetic aberrations is crucial for early therapy decisions in acute myeloid leukemia (AML) and recommended for all patients. Because genetic testing is expensive and time consuming, a need remains for cost-effective, fast, and broadly accessible tests to predict these aberrations in this aggressive malignancy. Here, we developed a novel fully automated end-to-end deep learning pipeline to predict genetic aberrations directly from single-cell images from scans of conventionally stained bone marrow smears already on the day of diagnosis. We used this pipeline to compile a multiterabyte data set of >2 000 000 single-cell images from diagnostic samples of 408 patients with AML. These images were then used to train convolutional neural networks for the prediction of various therapy-relevant genetic alterations. Moreover, we created a temporal test cohort data set of >444 000 single-cell images from further 71 patients with AML. We show that the models from our pipeline can significantly predict these subgroups with high areas under the curve of the receiver operating characteristic. Potential genotype-phenotype links were visualized with 2 different strategies. Our pipeline holds the potential to be used as a fast and inexpensive automated tool to screen patients with AML for therapy-relevant genetic aberrations directly from routine, conventionally stained bone marrow smears already on the day of diagnosis. It also creates a foundation to develop similar approaches for other bone marrow disorders in the future.
Angenendt, Linus | Medizinische Klinik A (Med A) |
Berdel, Wolfgang Eduard | Medizinische Klinik A (Med A) |
Bleckmann, Annalen | Medizinische Klinik A (Med A) |
Exeler, Jakoba Rita | Klinik für Medizinische Genetik |
Gromoll, Jörg | Institut für Reproduktions- und Regenerationsbiologie |
Haalck, Lars | Professur für Geoinformatics for Sustainable Development (Prof. Risse) |
Kockwelp, Jacqueline | Institut für Reproduktions- und Regenerationsbiologie |
Lenz, Georg | Medizinische Klinik A (Med A) |
Risse, Benjamin | Professur für Geoinformatics for Sustainable Development (Prof. Risse) |
Schlatt, Stefan | Centrum für Reproduktionsmedizin und Andrologie |
Schliemann, Christoph | Medizinische Klinik A (Med A) |
Thiele, Sebastian | Professur für Geoinformatics for Sustainable Development (Prof. Risse) |