Dataset Information

Detergent Screening with Hybrid Detergents Increases Observable Number of Protein Identities in Bottom-Up Proteomics

ABSTRACT: Detergents are key reagents in bottom-up proteomics that create an apparent, yet underappreciated bias on observable proteomes. Maximizing the chemical diversity in parallelized detergent screens is supposed to maximize observable proteomes by combining proteomics data sets of different detergents. Herein, we address the question of whether combining proteomics data sets from canonical detergents and related hybrid detergents can increase the observable number of unique protein identities by 35% compared to the standard sodium dodecyl sulphate. Our data indicate that the solubilizing properties of hybrid detergents do not reflect an average of canonical detergents, which increases the observable number of unique protein identities from 1604 to 2169 when proteomics data sets from sodium dodecyl sulphate, dodecyltrimethylammonium bromide, dendritic triglycerol detergent and related hybrid detergents from a screen on Escherichia coli are combined. Our data highlight the utility of cationic detergents and related hybrid detergents for enhancing the observable proteome. Detergent screening-based proteome reconstructions with canonical detergents and hybrid detergents present an interesting research direction towards improved proteome profiling applications.

INSTRUMENT(S):

ORGANISM(S): Escherichia Coli

SUBMITTER: Andreas Hentschel

LAB HEAD: Albert Sickmann

PROVIDER: PXD060875 | Pride | 2025-08-25

REPOSITORIES: Pride

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Dataset's files

Source:

			Action	DRS
	E_Coli_detergent_summary.xlsx	Xlsx
	QExactiveHF02_18761.raw	Raw
	QExactiveHF02_18761_Beads.msf	Msf
	QExactiveHF02_18762.raw	Raw
	QExactiveHF02_18762_SDS.msf	Msf

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Publications

Detergent Screening With Hybrid Detergents Increases Observable Number of Protein Identities in Bottom-Up Proteomics.

Behnke Jan-Simon JS Hentschel Andreas A Wolf Maximilian M Wycisk Virginia V Sickmann Albert A Heyer Robert S RS Urner Leonhard H LH

Proteomics 20250620 15

Detergents are key reagents in bottom-up proteomics that create an apparent, yet underappreciated bias on observable proteomes. Maximizing the chemical diversity of detergents in parallelized screens is supposed to maximize observable proteomes if proteomics data sets of different detergents are combined. The aim of our work is to investigate the potential of fusing ionic and nonionic detergent headgroups into hybrid detergents for increasing the observable number of unique protein identities. O ...[more]

PMID: 40539229

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