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Åke Borg

Åke Borg

Principal investigator

Åke Borg

Spatial deconvolution of HER2-positive breast cancer delineates tumor-associated cell type interactions


  • Alma Andersson
  • Ludvig Larsson
  • Linnea Stenbeck
  • Fredrik Salmén
  • Anna Ehinger
  • Sunny Z. Wu
  • Ghamdan Al-Eryani
  • Daniel Roden
  • Alex Swarbrick
  • Åke Borg
  • Jonas Frisén
  • Camilla Engblom
  • Joakim Lundeberg

Summary, in English

In the past decades, transcriptomic studies have revolutionized cancer treatment and diagnosis. However, tumor sequencing strategies typically result in loss of spatial information, critical to understand cell interactions and their functional relevance. To address this, we investigate spatial gene expression in HER2-positive breast tumors using Spatial Transcriptomics technology. We show that expression-based clustering enables data-driven tumor annotation and assessment of intra- and interpatient heterogeneity; from which we discover shared gene signatures for immune and tumor processes. By integration with single cell data, we spatially map tumor-associated cell types to find tertiary lymphoid-like structures, and a type I interferon response overlapping with regions of T-cell and macrophage subset colocalization. We construct a predictive model to infer presence of tertiary lymphoid-like structures, applicable across tissue types and technical platforms. Taken together, we combine different data modalities to define a high resolution map of cellular interactions in tumors and provide tools generalizing across tissues and diseases.


  • Pathology, Lund
  • LUCC: Lund University Cancer Centre
  • Breastcancer-genetics
  • Familial Breast Cancer

Publishing year





Nature Communications



Document type

Journal article


Nature Publishing Group


  • Medical Genetics
  • Cancer and Oncology



Research group

  • Familial Breast Cancer


  • ISSN: 2041-1723