GateNet: A novel neural network architecture for automated flow cytometry gating.

Journal: Computers in biology and medicine
PMID: 39002319

Abstract

BACKGROUND AND OBJECTIVE: Flow cytometry is a widely used technique for identifying cell populations in patient-derived fluids, such as peripheral blood (PB) or cerebrospinal fluid (CSF). Despite its ubiquity in research and clinical practice, the process of gating, i.e., manually identifying cell types, is labor-intensive and error-prone. The objective of this study is to address this challenge by introducing GateNet, a neural network architecture designed for fully end-to-end automated gating without the need for correcting batch effects.

Authors

  • Lukas Fisch
    Institute for Translational Psychiatry, University of Münster, Münster, Germany.
  • Michael Heming
    Department of Neurology with Institute of Translational Neurology, University and University Hospital Münster, Münster, Germany.
  • Andreas Schulte-Mecklenbeck
    Department of Neurology with Institute of Translational Neurology, University and University Hospital Münster, Münster, Germany.
  • Catharina C Gross
    Department of Neurology with Institute of Translational Neurology, University and University Hospital Münster, Münster, Germany.
  • Stefan Zumdick
    University of Münster, Institute for Translational Psychiatry, Münster, Germany.
  • Carlotta Barkhau
    Symbic GmbH, Osnabrück, Germany.
  • Daniel Emden
    Institute for Translational Psychiatry, University of Münster, Münster, Germany.
  • Jan Ernsting
    Institute for Translational Psychiatry, University of Münster, Münster, Germany.
  • Ramona Leenings
    Institute for Translational Psychiatry, University of Münster, Münster, Germany.
  • Kelvin Sarink
    Institute for Translational Psychiatry, University of Münster, Münster, Germany.
  • Nils R Winter
    Department of Psychiatry, University of Muenster, Münster, Germany.
  • Udo Dannlowski
    Department of Psychiatry and Psychotherapy, University of Münster, Germany.
  • Heinz Wiendl
    German Competence Network Multiple Sclerosis (KKNMS), Klinikum rechts der Isar, Technical University of Munich, Munich, Germany.
  • Gerd Meyer Zu Hörste
    Department of Neurology with Institute of Translational Neurology, University and University Hospital Münster, Münster, Germany.
  • Tim Hahn

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