Hi, I have a data which consist of sliced tissue of olfactory system. I need to do intensity analyse by Imagej , but whole layers of the samples are not the same since the bottom part of the tissue has always less signals. What do you advise about analysing those data?
You do not mention the source
of the intensity you wish to analyze. Is the lower part of your slices dimmer because of different target expression or tissue density effecting diffusion of your fluorescent marker into the tissue? You need to look at the anatomy of the source of your slices and
perhaaps
and perhaps segment your images by anatomical features or distance from source of diffusion. Treating the sections as uniform may not be appropriate. Hope that this helps.
First, I would recommend examining the tissue for the exact structure to know where this signal should appear and what it means. Treating all tissue as one ROI may not be correct. I don't know what you're examining, but I suppose analyzing the scrapings might lighten up the situation a bit. Good luck!
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