Lipid Droplets Tool¶The Lipid Droplets Tool helps to segment lipid droplets marked with BODIPY. You can find some example images here:
To install the tool, drag the link MRI_Lipid_Droplets_Tool.ijm to the ImageJ launcher window, save it under macros/toolsets in the ImageJ installation and restart ImageJ.
Select the "MRI_Lipid_Droplets_Tool" toolset from the >> button of the ImageJ launcher.
- the first button (the one with the image) opens this help page
- the s button runs the segmentation on the current image
Open the options-dialog by right-clicking on the s-button:
- min. size: objects smaller than min. size will be be considered as artefacts of the segmentation and will be removed from the result
A bandpass filter is applied to the input image by using a Gaussian filter and then scaling the image down and up again with increasing scale and taking the difference between the two low-pass filtered images. On the result an automatic threshold (percentile method) is applied. Holes in the objects are filled. An auto-threshold (triangle) is applied to the input image and the resulting mask is used to remove artefacts from the mask of the droplets image. Objects smaller then a give size are removed and a binary watershed transform is used to separate touching droplets. Objects touching the border of the image are removed.
Publications using this tool¶
- Ali, U., Wabitsch, M., Tews, D., and Colitti, M. (2023). Effects of allicin on human Simpson-Golabi-Behmel syndrome cells in mediating browning phenotype. Front. Endocrinol. 14, 1141303. 10.3389/fendo.2023.1141303.
- Hammel, J.H., and Bellas, E. (2020). Endothelial cell crosstalk improves browning but hinders white adipocyte maturation in 3D engineered adipose tissue. Integrative Biology 12, 81–89.
- Montanari, T., Boschi, F., and Colitti, M. (2019). Comparison of the Effects of Browning-Inducing Capsaicin on Two Murine Adipocyte Models. Front. Physiol. 10, 1380.
- Colitti, M., Boschi, F., and Montanari, T. (2018). Dynamic of lipid droplets and gene expression in response to β-aminoisobutyric acid treatment on 3T3-L1 cells". European Journal of Histochemistry 62.
- Montanari, T., and Colitti, M. (2018). Simpson–Golabi–Behmel syndrome human adipocytes reveal a changing phenotype throughout differentiation. Histochemistry and Cell Biology, 149, 593–605.