Software & Videos - Cipitria Lab

16291

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Software

Phase diagrams of bone remodeling using a
3D stochastic cellular automaton

Platform: MATLAB

Now available on GitHub

Citation:

Heller, A.-D., Valleriani, A., Cipitria, A.: Phase diagrams of bone remodeling using a 3D stochastic cellular automaton. PLOS ONE 19(6): e0304694 (2024).

https://doi.org/10.1371/journal.pone.0304694

Detection and tracking of early bone metastatic lesions in cortical bone

Platform: MATLAB

Now available on GitHub

Citation:

Young, S. A. E., Heller, A.-D., Garske, D. S., Rummler, M., Qian, V., Ellinghaus, A., Duda, G. N., Willie, B. M., Grüneboom, A., Cipitria, A.: From breast cancer cell homing to the onset of early bone metastasis: The role of bone (re)modeling in early lesion formation. Science Advances 10, eadj0975 (2024).

https://doi.org/10.1126/sciadv.adj0975

FUCCItrack: an all-in-one software for single cell tracking and cell cycle analysis

Platform: MATLAB or as a standalone application

Now available on GitHub

Citation:

Taïeb, H. M., Bertinetti, L., Robinson, T., Cipitria, A.: FUCCItrack: an all-in-one software for single cell tracking and cell cycle analysis. PLOS One 17(7):e0268297 (2022).

https://doi.org/10.1371/journal.pone.0268297

In vivo microCT-based time-lapse morphometry

Platform: MATLAB

Now available on GitHub

Citation:

Young, S. A. E., Rummler, M., Taïeb, H. M., Garske, D. S., Ellinghaus, A., Duda, G. N., Willie, B. M., Cipitria. A.: In vivo microCT-based time-lapse morphometry reveals anatomical site-specific differences in bone (re)modeling serving as baseline parameters to detect early pathological events. Bone 161, 116432 (2022).

https://doi.org/10.1016/j.bone.2022.116432

Videos

3D Detection of breast cancer cells in a 3D (intact) mouse tibia with light sheet
fluorescence microscopy (Young et al., 2024)

Early bone osteolytic lesion in mouse tibia at day 27 visualized with in vivo microCT (Young et al., 2024)

Breast cancer cell cycle dynamics under isotonic and hyperosmotic stress (Taieb et al., 2021)

Reversible growth arrest and reactivation of a single cancer cell (Taieb et al., 2021)

Cell attachment and migration on patterned hydrogels (Lueckgen et al., 2020)

Multiple myeloma injected bone with altered lacunar canalicular network (Ziouti et al., 2020)

Scaffold-guided soft and mineralized tissue patterning (Paris et al., 2017)

Bone regeneration within scaffold + BMP after 12 months (Reichert, Cipitria et al., 2012)

Bone regeneration within empty scaffold after 12 months (Reichert, Cipitria et al., 2012)

Software

Phase diagrams of bone remodeling using a 3D stochastic cellular automaton

Platform: MATLAB

Now available on GitHub

Citation:

Heller, A.-D., Valleriani, A.*, Cipitria, A.*: Phase diagrams of bone remodeling using a 3D stochastic cellular automaton. PLOS ONE 19(6): e0304694 (2024).

https://doi.org/10.1371/journal.pone.0304694

Detection and tracking of early bone metastatic lesions in cortical bone

Platform: MATLAB

Now available on GitHub

Citation:

https://doi.org/10.1126/sciadv.adj0975

FUCCItrack: an all-in-one software for single cell tracking and cell cycle analysis

Platform: MATLAB or as a standalone application

Now available on GitHub

Citation:

Taïeb, H. M., Bertinetti, L., Robinson, T., Cipitria, A.: FUCCItrack: an all-in-one software for single cell tracking and cell cycle analysis. PLOS One 17(7):e0268297 (2022).

https://doi.org/10.1371/journal.pone.0268297

In vivo microCT-based time-lapse morphometry

Platform: MATLAB

Now available on GitHub

Citation:

https://doi.org/10.1016/j.bone.2022.116432

Videos

3D Detection of breast cancer cells in a 3D (intact) mouse tibia with light sheet fluorescence microscopy (Young et al., 2024)

Early bone osteolytic lesion in mouse tibia at day 27 visualized with in vivo microCT (Young et al., 2024)

Early bone osteolytic lesion in mouse tibia at day 27 visualized with in vivo microCT (Young et al., 2024)

Breast cancer cell cycle dynamics under isotonic and hyperosmotic stress (Taieb et al., 2021)

Reversible growth arrest and reactivation of a single cancer cell (Taieb et al., 2021)

Cell attachment and migration on patterned hydrogels (Lueckgen et al., 2020)

Multiple myeloma injected bone with altered lacunar canalicular network (Ziouti et al., 2020)

Scaffold-guided soft and mineralized tissue patterning (Paris et al., 2017)

Bone regeneration within scaffold + BMP after 12 months (Reichert, Cipitria et al., 2012)

Bone regeneration within empty scaffold after 12 months (Reichert, Cipitria et al., 2012)

Phase diagrams of bone remodeling using a
3D stochastic cellular automaton

Heller, A.-D., Valleriani, A., Cipitria, A.: Phase diagrams of bone remodeling using a 3D stochastic cellular automaton. PLOS ONE 19(6): e0304694 (2024).

3D Detection of breast cancer cells in a 3D (intact) mouse tibia with light sheet
fluorescence microscopy (Young et al., 2024)