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@ARTICLE{Timonidis:1025973,
      author       = {Timonidis, Nestor and Bakker, Rembrandt and Rubio-Teves,
                      Mario and Alonso-Martínez, Carmen and Garcia-Amado, Maria
                      and Clascá, Francisco and Tiesinga, Paul H. E.},
      title        = {{T}ranslating single-neuron axonal reconstructions into
                      meso-scale connectivity statistics in the mouse
                      somatosensory thalamus},
      journal      = {Frontiers in neuroinformatics},
      volume       = {17},
      issn         = {1662-5196},
      address      = {Lausanne},
      publisher    = {Frontiers Research Foundation},
      reportid     = {FZJ-2024-03250},
      pages        = {1272243},
      year         = {2023},
      abstract     = {Characterizing the connectomic and morphological diversity
                      of thalamic neurons is key for better understanding how the
                      thalamus relays sensory inputs to the cortex. The recent
                      public release of complete single-neuron morphological
                      reconstructions enables the analysis of previously
                      inaccessible connectivity patterns from individual neurons.
                      Here we focus on the Ventral Posteromedial (VPM) nucleus and
                      characterize the full diversity of 257 VPM neurons, obtained
                      by combining data from the MouseLight and Braintell
                      projects. Neurons were clustered according to their most
                      dominantly targeted cortical area and further subdivided by
                      their jointly targeted areas. We obtained a 2D embedding of
                      morphological diversity using the dissimilarity between all
                      pairs of axonal trees. The curved shape of the embedding
                      allowed us to characterize neurons by a 1-dimensional
                      coordinate. The coordinate values were aligned both with the
                      progression of soma position along the dorsal-ventral and
                      lateral-medial axes and with that of axonal terminals along
                      the posterior-anterior and medial-lateral axes, as well as
                      with an increase in the number of branching points, distance
                      from soma and branching width. Taken together, we have
                      developed a novel workflow for linking three challenging
                      aspects of connectomics, namely the topography, higher order
                      connectivity patterns and morphological diversity, with VPM
                      as a test-case. The workflow is linked to a unified access
                      portal that contains the morphologies and integrated with 2D
                      cortical flatmap and subcortical visualization tools. The
                      workflow and resulting processed data have been made
                      available in Python, and can thus be used for modeling and
                      experimentally validating new hypotheses on thalamocortical
                      connectivity.},
      cin          = {IAS-6},
      ddc          = {610},
      cid          = {I:(DE-Juel1)IAS-6-20130828},
      pnm          = {5231 - Neuroscientific Foundations (POF4-523) /
                      NeuronsReunited - Neurons reunited: data and software to
                      reconstruct long-range projection neurons from brain tissue,
                      place them in a digital reference brain with high precision,
                      and model their interactions (FLAG – ERA JTC 2019) / HBP
                      SGA3 - Human Brain Project Specific Grant Agreement 3
                      (945539) / DFG project 491111487 -
                      Open-Access-Publikationskosten / 2022 - 2024 /
                      Forschungszentrum Jülich (OAPKFZJ) (491111487)},
      pid          = {G:(DE-HGF)POF4-5231 / G:(EU-Grant)FLAG – ERA JTC 2019 /
                      G:(EU-Grant)945539 / G:(GEPRIS)491111487},
      typ          = {PUB:(DE-HGF)16},
      pubmed       = {38107469},
      UT           = {WOS:001124542000001},
      doi          = {10.3389/fninf.2023.1272243},
      url          = {https://juser.fz-juelich.de/record/1025973},
}