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@ARTICLE{DiMarco:284831,
      author       = {B. Di Marco$^*$ and J. Vázquez-Marín and H. Monyer$^*$
                      and L. Centanin and J. Alfonso$^*$},
      title        = {{S}patial transcriptomics map of the embryonic mouse brain
                      - a tool to explore neurogenesis.},
      journal      = {Biology open},
      volume       = {12},
      number       = {10},
      issn         = {2046-6390},
      address      = {Cambridge},
      publisher    = {Company},
      reportid     = {DKFZ-2023-02127},
      pages        = {bio060151},
      year         = {2023},
      note         = {#EA:A231#LA:A231#},
      abstract     = {The developing brain has a well-organized anatomical
                      structure comprising different types of neural and
                      non-neural cells. Stem cells, progenitors and newborn
                      neurons tightly interact with their neighbouring cells and
                      tissue microenvironment, and this intricate interplay
                      ultimately shapes the output of neurogenesis. Given the
                      relevance of spatial cues during brain development, we
                      acknowledge the necessity for a spatial transcriptomics map
                      accessible to the neurodevelopmental community. To fulfil
                      this need, we generated spatially resolved RNA sequencing
                      (RNAseq) data from embryonic day 13.5 mouse brain sections
                      immunostained for mitotic active neural and vascular cells.
                      Unsupervised clustering defined specific cell type
                      populations of diverse lineages and differentiation states.
                      Differential expression analysis revealed unique
                      transcriptional signatures across specific brain areas,
                      uncovering novel features inherent to particular anatomical
                      domains. Finally, we integrated existing single-cell RNAseq
                      datasets into our spatial transcriptomics map, adding tissue
                      context to single-cell RNAseq data. In summary, we provide a
                      valuable tool that enables the exploration and discovery of
                      unforeseen molecular players involved in neurogenesis,
                      particularly in the crosstalk between different cell types.},
      keywords     = {Gene expression atlas (Other) / Mouse telencephalon (Other)
                      / Neurodevelopment (Other) / Single-cell and spatial
                      transcriptomics data integration (Other)},
      cin          = {A231},
      ddc          = {570},
      cid          = {I:(DE-He78)A231-20160331},
      pnm          = {311 - Zellbiologie und Tumorbiologie (POF4-311)},
      pid          = {G:(DE-HGF)POF4-311},
      typ          = {PUB:(DE-HGF)16},
      pubmed       = {pmid:37855382},
      doi          = {10.1242/bio.060151},
      url          = {https://inrepo02.dkfz.de/record/284831},
}