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@ARTICLE{Pallast:864572,
      author       = {Pallast, Niklas and Wieters, Frederique and Fink, Gereon R.
                      and Aswendt, Markus},
      title        = {{A}tlas-based imaging data analysis tool for quantitative
                      mouse brain histology ({AIDA}histo)},
      journal      = {Journal of neuroscience methods},
      volume       = {326},
      issn         = {0165-0270},
      address      = {Amsterdam [u.a.]},
      publisher    = {Elsevier Science},
      reportid     = {FZJ-2019-04291},
      pages        = {108394},
      year         = {2019},
      abstract     = {Cell counting in neuroscience is a routine method of utmost
                      importance to support descriptive in vivo findings with
                      quantitative data on the cellular level. Although known to
                      be error- and bias-prone, manual cell counting of
                      histological stained brain slices remains the gold standard
                      in the field. While the manual approach is limited to small
                      regions-of-interest in the brain, automated tools are needed
                      to up-scale translational approaches and generate whole
                      mouse brain counts in an atlas framework. Our goal was to
                      develop an algorithm which requires no pre-training such as
                      machine learning algorithms, only minimal user input, and
                      adjustable variables to obtain reliable cell counting
                      results for stitched mouse brain slices registered to a
                      common atlas such as the Allen Mouse Brain atlas. We adapted
                      filter banks to extract the maxima from round-shaped cell
                      nuclei and various cell structures. In a qualitative as well
                      as quantitative comparison to other tools and two expert
                      raters, AIDAhisto provides accurate and fast results for
                      cell nuclei as well as immunohistochemical stainings of
                      various types of cells in the mouse brain.},
      cin          = {INM-3},
      ddc          = {610},
      cid          = {I:(DE-Juel1)INM-3-20090406},
      pnm          = {572 - (Dys-)function and Plasticity (POF3-572)},
      pid          = {G:(DE-HGF)POF3-572},
      typ          = {PUB:(DE-HGF)16},
      pubmed       = {pmid:31415844},
      UT           = {WOS:000487166600023},
      doi          = {10.1016/j.jneumeth.2019.108394},
      url          = {https://juser.fz-juelich.de/record/864572},
}