Most people in research usually use centrifuge to separate the supernatant from pellet but people do centrifuge at different rpm or g for different tissue samples. How do we usually fix the rpm or g for specific tissue sample?
In my experience with protocols, it often goes back to whatever the first person in a particular lab decided to do - not very satisfying scientifically, but at least it's consistent. It also depends on what you're most interested in - e.g. the cleanest possible supernatant, or the least damage to some component of the pellet. In general, I would look for papers on samples the most similar to yours, and then maybe test a few different times and speeds across the range they used.
Forgot to add - write to the people, if you find a promising method. Most likely they'll be flattered to be asked, and the worst they can do is ignore you.
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