You could try to embed your scaffolds in OCT and then snap-freeze them in isopentane cooled by dry ice. Then you can cut sections on a cryotome (4-100µm) and do both HE and fluorescent labellings if you want to. Alternatively, fix your scaffold in PFA and then do any whole mount IF labelling you want and look at the scaffolds using confocal microscopy - you will only see the first 100-150µm from the surface, but if you can flip your scaffold around in a glass bottom dish then you can still see something in 3D (need an inverted microscope for this).

 Hi Freja,

Thank you for your answer.

For H&E staining , we can fix the cells in the scaffold, and stain them, but is there any method for fluorescent staining to do the same. My question is how to save the cell sample at lets say 3rd day of cell culture and image them later at any other day. Is there any method to store the fluorescent stained sample or just the sample of particular day to analyse at later date?

Thanks!

Sweta