PXD061135-1

PXD061135 is an original dataset announced via ProteomeXchange.

Title	Enhancing tandem MS sensitivity and peptide identification via ion pre-accumulation in an Orbitrap mass spectrometer
Description	High-throughput mass spectrometry-based proteomics is gaining increasing interest, but mass spectrometers need to adapt to enable faster analysis times. For Orbitrap mass spectrometers, faster scan rates are constrained by limitations on ion accumulation time, duty cycle, and transient length. Here, we introduce a new scanning strategy called "pre-accumulation" that enables storing ions in the bent flatapole in parallel with the C-trap/IRM operation. This significantly improves ion beam utilization and allows scanning speeds over 70 Hz on hybrid Orbitrap instruments.The combination of pre-accumulation and increased scan speeds enhances peptide and protein group identifications for short LC gradients, and improves sensitivity for high-throughput applications. These benefits are further amplified when coupled with full mass range phase-constrained spectrum deconvolution (ΦSDM), especially for fast, lower-resolving Orbitrap measurements. The pre-accumulation approach offers distinct advantages, particularly for conditions with reduced signal input, and does not require any hardware changes, making it highly attractive for Orbitrap mass spectrometers used with fast MS/MS acquisition methods.
HostingRepository	PRIDE
AnnounceDate	2026-02-16
AnnouncementXML	Submission_2026-02-16_08:48:19.971.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Ulises H Guzman
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: NEWT:9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Astral

Revision	Datetime	Status	ChangeLog Entry
0	2025-02-24 06:33:12	ID requested
⏵ 1	2026-02-16 08:48:20	announced

Guzman UH, Ryk, æ, r M, Hendriks IA, Stewart H, Denisov E, Hagedorn B, Petzoldt J, Kreutzmann A, Mueller Y, Arrey TN, Colonius I, Ø, stergaard O, Koenig C, Kraegenbring J, Fort KL, Couzijn E, Hauschild JP, Hermanson D, Zabrouskov V, Hock C, Damoc E, Olsen JV, Higher-Throughput Proteome Profiling Enabled by Parallelized Pre-Accumulation and Optimized Ion Processing in the Orbitrap Astral Zoom Mass Spectrometer. Mol Cell Proteomics, 25(2):101504(2026) [pubmed]

10.1016/j.mcpro.2025.101504;

submitter keyword: LC-MS, DIA, Pre-Accumulation, Proteomics, DDA

Jesper V.
contact affiliation	Executive Director, Professor University of Copenhagen Faculty of Health and Medical Sciences Novo Nordisk Foundation Center for Protein Research Proteomics Program
contact email	jesper.olsen@cpr.ku.dk
lab head
Ulises H Guzman
contact affiliation	Novo Nordisk Foundation Center for Protein Research
contact email	ulysseshrdz@gmail.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD061135
     1. Label: PRIDE project
     2. Name: Enhancing tandem MS sensitivity and peptide identification via ion pre-accumulation in an Orbitrap mass spectrometer