10.1021/acs.jproteome.5b00270.s001 Anna Heink Anna Heink W. Sean Davidson W. Sean Davidson Debi K. Swertfeger Debi K. Swertfeger L. Jason Lu L. Jason Lu Amy S. Shah Amy S. Shah A Comparison of Methods To Enhance Protein Detection of Lipoproteins by Mass Spectrometry American Chemical Society 2015 Enhance Protein Detection mass spectrometry gel filtration chromatography method AALS sequence coverage mass spectrometry analysis LRA OSD lipid removal agent density lipoprotein size range 2015-07-02 00:00:00 Journal contribution https://acs.figshare.com/articles/journal_contribution/A_Comparison_of_Methods_To_Enhance_Protein_Detection_of_Lipoproteins_by_Mass_Spectrometry/2153683 We sought to develop a new method to more efficiently analyze lipid-bound proteins by mass spectrometry using a combination of a lipid removal agent (LRA) that selectively targets lipid-bound proteins and a mass spectrometry compatible detergent, anionic acid labile surfactant (AALS), that is capable of eluting proteins off the LRA. This method was compared to established methods that use the lipid removal agent alone and straight proteomic analysis of human plasma after organic solvent delipidation (OSD). Plasma from healthy individuals was separated by gel filtration chromatography and prepared for mass spectrometry analysis by each of the described methods. The addition of AALS to LRA increased the overall number of proteins detected in both the high and low density lipoprotein size range, the number of peptide counts for each protein, and the overall sequence coverage. Organic solvent delipidation detected the most proteins, though with some decrease in overall protein detection and sequence coverage due to the presence of nonlipid-bound proteins. The use of LRA allows for selection and analysis of lipid-bound proteins. The addition of a mass spectrometry compatible detergent improved detection of lipid-bound proteins from human plasma using LRA.