Relative differences in protein amounts can be assessed by the signal intensity as it typically correlates to the protein amount in the blot. As long as you use the proper plastics or glass you should not have any problems whatsoever with any unwanted fluorescence or glare.Western blot analysis has been used as a qualitative assessment of the presence of a specific protein of interest in a sample with a target-specific antibody. #Always ensure you use plastic or glass that has the “LF” designation (low-fluorescence). Heating will denature the GFP protein to a point that will no longer fluoresce (see Figure 6 below). What needs to be avoided is boiling the sample. *Partial denaturation of GFP by SDS will still keep the fluorescence of the protein fairly strong.
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