I want to study heparin-binding proteins on the surface of exosomes, and I am using streptavidin dynabeads MyOne C1 conjugated with biotinylated heparin as the complex to pull down exosomes subpopulation that has a high affinity to heparin. I use MyOne C1 streptavidin dynabeads as a negative control. After pull-down, I run the sample on gel and silver stain total protein. Unluckily, I found no difference in protein band patterns between the heparin beads and control beads. It seems unexpected to me because I am pretty confident that the conjugation of heparin is successful. I understand that there will be nonspecific binding to the control beads but how can the banding patterns show up as 100% similar?
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