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Each folder in this section contains either the data generated from a simulation or movies/figures (or both) obtained in a TiFoSi in silico experiment. **We encourage users and developers to contribute to populate this repository by submitting relevant examples that highlight some TiFoSi functionalities. To submit contact jbuceta@gmail.com** List of files: - **Turing Simulation**: Two stage simulation showing the formation of Turing patterns. During a first stage tissue growth and protein expression (two species) are implemented (but decoupled). During a second stage, the cortex activity (contractility) depends on the expression levels of the species and induces additional pattern remodeling and shape changes at the tissue level. *Publication*: TiFoSi: an Efficient Tool for Mechanobiology Simulations of Epithelia, O. Canela-Xandri, S. Anbari, and J. Buceta, Bioinformatics XX, YY (2020) - **Cell Mixing**: Two cell populations with different adhesion properties (line tension) that favor intermingling are provided. As a result, a salt-and-pepper pattern develops. *Publication*: TiFoSi: an Efficient Tool for Mechanobiology Simulations of Epithelia, O. Canela-Xandri, S. Anbari, and J. Buceta, Bioinformatics XX, YY (2020) - **Morphogen Proliferation**: A morphogen is produced, as diffuses from, a signaling center. The cell cycle duration depends on the cellular morphogen concentration (the larger the concentration, the shorter the cell cycle). As a result, tissue elongation is achieved. *Publication*: TiFoSi: an Efficient Tool for Mechanobiology Simulations of Epithelia, O. Canela-Xandri, S. Anbari, and J. Buceta, Bioinformatics XX, YY (2020) - **Mechanical Feedback**: A protein is produced in cells with values of the contractility parameter within a particular range. The cell cycle speed depends on the concentration of that protein and, as a consequence, the cell cycle progression is arrested in cells that do not express the protein. *Publication*: TiFoSi: an Efficient Tool for Mechanobiology Simulations of Epithelia, O. Canela-Xandri, S. Anbari, and J. Buceta, Bioinformatics XX, YY (2020) - **Division Modulated by a Morphogen**: In this example, the orientation of the cleavage direction depends on the cellular concentration of a morphogen (but only for a particular cell type). As a result, irregular tissue growth develops. *Publication*: TiFoSi: an Efficient Tool for Mechanobiology Simulations of Epithelia, O. Canela-Xandri, S. Anbari, and J. Buceta, Bioinformatics XX, YY (2020) - **Cell Sorting**: In this example, three TiFoSi functionalities are used. On the one hand, the initial cellular configuration is read from a file (the final frame of a salt-and-pepper simulation). On the other hand, the adhesion parameters favor cell sorting (differential adhesion hypothesis) and domains or cells with the same adhesion properties start developing. Finally, since the mechanical time-scale is way faster than any other time-scale, in this simulation the so-called "intermediate steps" parameter is changed to slow-down the simulation. *Publication*: TiFoSi: an Efficient Tool for Mechanobiology Simulations of Epithelia, O. Canela-Xandri, S. Anbari, and J. Buceta, Bioinformatics XX, YY (2020)