TFMLAB: a MATLAB toolbox for 4D traction force microscopy

Barrasa‐Fano, Jorge; Shapeti, Apeksha; Jorge-Peñas, Álvaro; Barzegari, Mojtaba; Sanz-Herrera, José A.; Oosterwyck, Hans Van

doi:10.1101/2020.12.18.423056

Cited by 5 publications

(6 citation statements)

References 33 publications

(34 reference statements)

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“…The arrows in the displacement maps indicate the direction and magnitude of the measured displacements (Fig. 2a-d, details in the Methods Section) 29 . The arrows in the displacement maps indicate the direction and amplitude of the detected displacements.…”

Section: Cell-induced Fiber Displacements and Force Propagationmentioning

confidence: 99%

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Synthetic fibrous hydrogels as a platform to decipher cell-matrix mechanical interactions

Yuan

Liu

Cóndor

et al. 2022

Preprint

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The interactions between cells and their direct environment are crucial for cell fate but biochemically and mechanically highly complex, and therefore, poorly understood. Despite recent advances that exposed the impact of a range of different factors, real progress remains challenging, since appropriate controllable matrices and quantitative analysis techniques that cover a range of time and length scales are unavailable. Here, we use a synthetic fibrous hydrogel with nonlinear mechanics to mimic and tailor the bi-directional cell-matrix interactions. Using advanced microscopy-based approaches, we acquire a comprehensive picture of how cellular traction forces, fiber remodeling, matrix stiffening, matrix properties and cellular behavior interact, highlighting for instance, the importance of a fibrous architecture and nonlinear mechanics of the matrix. Complete mapping of cell-matrix interactions at the cellular length scale provides indispensable information for the rational design of biomimetic materials to recreate realistic in vitro cell environments.

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Section: Cell-induced Fiber Displacements and Force Propagationmentioning

confidence: 99%

“…Displacement calculation. The Matlab toolbox TFMLAB was used to process the microscopy data and calculate matrix displacements around the adipose cell 29 . This software is freely available at: https://gitlab.kuleuven.be/MAtrix/Jorge/tfmlab_public.…”

Section: Image Acquisitionmentioning

confidence: 99%

Synthetic fibrous hydrogels as a platform to decipher cell-matrix mechanical interactions

Yuan

Liu

Cóndor

et al. 2022

Preprint

Self Cite

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“…More recently, a comprehensive tool for 4D (x,y,z,t) TFM (TFMLAB) based on an FEM engine has been developed as a MATLAB package by Barrasa-Fano et al . ( 122 ) and made available on Github repository https://github.com/ElsevierSoftwareX/SOFTX-D-20-00104 , (Accessed January 21, 2022). The tool integrates all the computational steps to calculate active cellular forces from confocal microscopy images, including image processing, cell segmentation, image alignment, matrix displacement measurement and force recovery.…”

Section: Advanced Tfm Variantsmentioning

confidence: 99%

A primer to traction force microscopy

Zancla

Mozetic

Orsini

et al. 2022

Journal of Biological Chemistry

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“…The transformation of 2D TFM to 3D TFM and further multiscaling of TFMs require a complex algorithm that can guarantee critical accuracy. For instance, to determine the forces exerted by cells in multiscale TFM, researchers designed a 4D TFM technique [156], where spatial 3D system was combined with temporal 1D incorporating an 'all in one' toolbox to perform the necessary computation steps required for TFM. Using this technique, raw input images can be computed using a graphical user interface.…”

Section: Multiscale Tfmmentioning

confidence: 99%

The role of cellular traction forces in deciphering nuclear mechanics

et al. 2022

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Cellular forces exerted on the extracellular matrix (ECM) during adhesion and migration under physiological and pathological conditions regulate not only the overall cell morphology but also nuclear deformation. Nuclear deformation can alter gene expression, integrity of the nuclear envelope, nucleus-cytoskeletal connection, chromatin architecture, and, in some cases, DNA damage responses. Although nuclear deformation is caused by the transfer of forces from the ECM to the nucleus, the role of intracellular organelles in force transfer remains unclear and a challenging area of study. To elucidate nuclear mechanics, various factors such as appropriate biomaterial properties, processing route, cellular force measurement technique, and micromanipulation of nuclear forces must be understood. In the initial phase of this review, we focused on various engineered biomaterials (natural and synthetic extracellular matrices) and their manufacturing routes along with the properties required to mimic the tumor microenvironment. Furthermore, we discussed the principle of tools used to measure the cellular traction force generated during cell adhesion and migration, followed by recently developed techniques to gauge nuclear mechanics. In the last phase of this review, we outlined the principle of traction force microscopy (TFM), challenges in the remodeling of traction forces, microbead displacement tracking algorithm, data transformation from bead movement, and extension of 2-dimensional TFM to multiscale TFM.

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TFMLAB: a MATLAB toolbox for 4D traction force microscopy

Cited by 5 publications

References 33 publications

Synthetic fibrous hydrogels as a platform to decipher cell-matrix mechanical interactions

Synthetic fibrous hydrogels as a platform to decipher cell-matrix mechanical interactions

A primer to traction force microscopy

The role of cellular traction forces in deciphering nuclear mechanics

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