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@MISC{Gockel:280738,
      author       = {Gockel, Nala and Nieves-Rivera, Nayadoleni and Druart,
                      Mélanie and Jaako, Külli and Fuhrmann, Falko and
                      Rožkalne, Rebeka and Musacchio, Fabrizio and Poll, Stefanie
                      and Baiba, Jansone and Fuhrmann, Martin and Le Magueresse,
                      Corentin},
      title        = {{D}ataset: {E}xample {D}atasets for {M}icroglial {M}otility
                      {A}nalysis {U}sing the {M}otil{A} {P}ipeline},
      publisher    = {Zenodo},
      reportid     = {DZNE-2025-00959},
      year         = {2025},
      abstract     = {This dataset contains two 5D time-lapse imaging stacks of
                      the mouse frontal cortex acquired using in vivo two-photon
                      microscopy. The data were acquired to study microglial
                      process motility in the context of complement C4
                      overexpression, a genetic risk factor for schizophrenia.
                      These stacks are provided as example input data for the
                      MotilA (Microglial Motility Analysis) pipeline. This dataset
                      accompanies the manuscript by Gockel $\&$ Nieves-Rivera et
                      al. (2025), currently under revision. This record will be
                      updated with the final reference upon publication. Dataset
                      details Each file is a 5D TIFF stack with axes in the order
                      (T, C, Z, Y, X): • T: time points (imaged every 5 minutes
                      for 40 minutes) • C: imaging channels (channel 0 =
                      microglia [Cx3cr1-GFP], channel 1 = neurons [tdTomato]) •
                      Z: z-slices (~60 slices at 1 µm spacing) • Y, X: spatial
                      dimensions (~125 × 125 $μm^2,$ ~1200 × 1200 px; pixel
                      size: 0.0950785 μm) Animal details • Model: Cx3cr1-GFP
                      mice (microglia), in utero electroporation with tdTomato
                      (neurons) • Age at imaging: P15–P19 • Brain region:
                      Frontal cortex • Condition 1: Control • Condition 2: C4
                      overexpression (C4HA plasmid, frontal cortex) Imaging
                      parameters • Microscope: In vivo two-photon microscope
                      (Zeiss 7MP multiphoton microscope) • Laser: Tunable IR
                      laser at 980 nm (InSight X3 tunable laser from
                      Spectra-Physics) • Time-lapse: 5 min intervals over 40
                      minutes • Mode: Mice were headfixed during acquisition
                      Applications These datasets were used to evaluate: •
                      Microglial process motility • Gained, lost, and stable
                      microglial pixels across time • Turnover ratio (TOR) as a
                      proxy for fine process dynamics Motila Compatibility The
                      files are directly compatible with the MotilA pipeline,
                      which performs sub-volume extraction, z-projection, spectral
                      unmixing, filtering, segmentation, and motility
                      quantification based on pixel-wise comparisons.
                      Acknowledgments We thank the Cell and Tissue Imaging
                      Facility at the IFM (Theano Eirinopoulou, Mythili
                      Savariradjane), the Light Microscopy Facility at DZNE Bonn
                      (Hans Fried, Severin Filser), and the Animal Research
                      Facilities at DZNE Bonn and IFM. Funding This work was
                      supported by: • DZNE (MF) • University of Latvia (BJ)
                      • INSERM (CLM) • Sorbonne University (CLM) • Fondation
                      de France to CLM (FDF#00112562) • ERANET Neuron grants to
                      CLM (ANR-18-NEUR-008-02), MF (BMBF 01EW1905), and BJ (VIAA
                      1.1.1.5/ERANET/20/01) • DIM C-BRAINS (Conseil Régional
                      d’Ile-de-France) – CLM’s team is a member •
                      Fédération pour la Recherche sur le Cerveau (CLM) •
                      European Union ERC-CoG (MicroSynCom 865618) • German
                      Research Foundation (DFG): SFB1089 (C01, B06), SPP2395 (MF,
                      NG, FF, FM) • DFG Excellence Cluster ImmunoSensation2 (MF)
                      • iBehave network to MF and SP (Ministry of Culture and
                      Science of the State of North Rhine-Westphalia)},
      keywords     = {two-photon imaging (Other) / microglia (Other) / in vivo
                      imaging (Other) / Python analysis pipeline (Other) / mouse
                      model (Other) / neuroscience (Other)},
      cin          = {AG Fuhrmann},
      cid          = {I:(DE-2719)1011004},
      pnm          = {352 - Disease Mechanisms (POF4-352)},
      pid          = {G:(DE-HGF)POF4-352},
      typ          = {PUB:(DE-HGF)32},
      doi          = {10.5281/zenodo.15061565},
      url          = {https://pub.dzne.de/record/280738},
}