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Low-resolution FAIMS for increased peptide coverage in low-load and single-cell proteomics

ABSTRACT: Field Asymmetric Ion Mobility Spectrometry (FAIMS) is an indispensable tool in single-cell and low-input proteomics. Here, we show that tuning FAIMS resolution via electrode temperature modulation improves sensitivity. We demonstrate that lowering FAIMS resolution broadens the compensation voltage window, thereby increasing ion transmission. This significantly improves ion counts, quantitative precision and peptide identifications by 25 - 34%. These results were mirrored when analyzing single cell samples.

INSTRUMENT(S):

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Epithelial Cell

DISEASE(S): Lung Carcinoma

SUBMITTER: Manuel Matzinger

LAB HEAD: Karl Mechtler

PROVIDER: PXD069335 | Pride | 2026-04-14

REPOSITORIES: Pride

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			Action	DRS
	202500611_Astral1_Neo6_TH113_Matzinger_THIDSP_006__80SPD_out100_0cell_H1.raw	Raw
	202500611_Astral1_Neo6_TH113_Matzinger_THIDSP_006__80SPD_out100_0cell_H2.raw	Raw
	202500611_Astral1_Neo6_TH113_Matzinger_THIDSP_006__80SPD_out100_0cell_H3.raw	Raw
	202500611_Astral1_Neo6_TH113_Matzinger_THIDSP_006__80SPD_out100_0cell_H4.raw	Raw
	202500611_Astral1_Neo6_TH113_Matzinger_THIDSP_006__80SPD_out100_0cell_H5.raw	Raw

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