Computational protocol: IQGAP1 in Podosomes/Invadosomes Is Involved in the Progression of Glioblastoma Multiforme Depending on the Tumor Status

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Protocol publication

[…] For red/green colocalization analysis, the open resource digital image analysis software ImageJ has been used (Rasband, W.S., ImageJ, National Institutes of Health, Bethesda, MD, USA, http://rsb.info.nih.gov/ij/, 1997–2004), implemented with the Manders’ coefficients plug-in developed by Tony Collins (Wright Cell Imaging Facility, Toronto, ON, Canada), which calculates Manders’ coefficients for two 8- or 16-bit images or stacks. Briefly, all confocal images were captured at the same magnification (40×) and with the same levels of contrast and brightness. Using the ImageJ tools, images were then converted in 8-bit grey scale, background subtracted and analyzed for colocalization with “Manders’ coefficients” plug-in. The range value of Manders’ Overlap coefficient (R) is 0–1, with 0 representing low colocalization, and 1 high colocalization. The values obtained were used to create a box and whisker plot to visualize the results. In are reported the mean and standard deviation of the values obtained. […]

Pipeline specifications

Software tools Coloc, ImageJ
Application Microscopic phenotype analysis
Organisms Homo sapiens
Diseases Brain Neoplasms, Glioblastoma, Neoplasms