PuMA: PubMed gene/cell type-relation Atlas.

Journal: BMC bioinformatics
Published Date: Jul 29, 2025

Abstract

BACKGROUND: Rapid extraction and visualization of cell-specific gene expression is important for automatic cell type annotation, e.g. in single cell analysis. There is an emerging field in which tools such as curated databases or machine learning methods are used to support cell type annotation. However, complementing approaches to efficiently incorporate the latest knowledge of free-text articles from literature databases, such as PubMed, are understudied.

Authors

  • Lucas Bickmann
    Institute of Medical Informatics, University of Münster, Münster, Germany.
  • Sarah Sandmann
    Institute of Medical Informatics, University of Münster, Münster, Germany.
  • Carolin Walter
    Institute of Medical Informatics, University of Münster, Münster, Germany.
  • Julian Varghese
    Institute of Medical Data Science, Otto-von-Guericke University, Magdeburg, Germany.

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