hi,
i really need to look at a differentiation marker and for this i use a primary antibody derived from goat to detect synaptopodin protein. For my western blot analysis, i see a non specific band that is 50kd bigger than the expected band, plus a fainter band of the expected size. I deduce this could be primary antibody binding non specifically or secondary antibody reacting non specifically to antigen.
i recently did immunofluorescence as well, and i see a strong staining. For this IF, i use the same primary antibody, but different secondary antibody (one that is tagged to fluorescent protein). What are the chances there is non specific staining involved?
Noteworthy to note that i use milk as blocking agent for western blot and BSA as blocking agent IF. Maybe this decrease possibility of pri ab non specific binding?