PXD060875-1

PXD060875 is an original dataset announced via ProteomeXchange.

Title	Detergent Screening with Hybrid Detergents Increases Observable Number of Protein Identities in Bottom-Up Proteomics
Description	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.
HostingRepository	PRIDE
AnnounceDate	2025-08-25
AnnouncementXML	Submission_2025-08-24_17:51:26.573.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Andreas Hentschel
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationList	iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2025-02-17 07:07:50	ID requested
⏵ 1	2025-08-24 17:51:27	announced

Behnke JS, Hentschel A, Wolf M, Wycisk V, Sickmann A, Heyer RS, Urner LH, Detergent Screening With Hybrid Detergents Increases Observable Number of Protein Identities in Bottom-Up Proteomics. Proteomics, 25(15):6-12(2025) [pubmed]

10.1002/pmic.70003;

submitter keyword: proteomics, E. coli, bottum-up,hybrid detergent, SDS

Albert Sickmann
contact affiliation	Proteomics, Bioanalytics, Leibniz-Institut für analytische Wissenschaften - ISAS - e. V.
contact email	albert.sickmann@isas.de
lab head
Andreas Hentschel
contact affiliation	Leibniz Institut für Analytische Wissenschaften
contact email	andreas.hentschel@isas.de
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD060875
     1. Label: PRIDE project
     2. Name: Detergent Screening with Hybrid Detergents Increases Observable Number of Protein Identities in Bottom-Up Proteomics