For protein samples, Pierce Polyacrylamide Spin Desalting Columns (Cat. No. 89849) can be used to remove salts and other small molecular weight contaminates. Acetone precipitation (https://tools.thermofisher.com/content/sfs/brochures/TR0049-Acetone-precipitation.pdf) is recommended for low protein amounts provided you have at least 10 µg of sample.
For peptide samples derived from protein digests, we recommend using Pierce Peptide Desalting Spin Columns (Cat. No. 89852), Pierce C18 Spin Tips (Cat. No. 84850) or an in-line C18 trap column (https://www.thermofisher.com/order/catalog/product/164564-CMD) for sample clean-up.
Find additional tips, troubleshooting help, and resources within our Mass Spectrometry Support Center.