PXD064536

PXD064536 is an original dataset announced via ProteomeXchange.

Title	Evaluation of a modified Orbitrap Astral Zoom prototype for quantitative proteomics - Beyond identification lists
Description	Mass spectrometry instrumentation continues to evolve rapidly, yet quantifying these advances beyond conventional peptide and protein detections remains challenging. Here, we evaluate a modified Orbitrap Astral Zoom mass spectrometer (MS) prototype and compare its performance to the standard Orbitrap Astral MS. Across a range of acquisition methods and sample inputs, the prototype instrument outperformed the standard Orbitrap Astral MS in precursor and protein identifications, ion accumulation efficiency, and reproducibility of measurements. To enable meaningful cross-platform comparisons, we implemented an ion calibration framework that converts signal intensity from arbitrary units to absolute ion counts (ions/sec). This benchmarking strategy showed that the prototype consistently sampled more ions per peptide, resulting in improved sensitivity and quantitative precision. To make these metrics broadly accessible, we added new metrics to the Skyline document grid to report ion counts directly from data-independent acquisition (DIA) data. Taken together, our results demonstrate the Orbitrap Astral Zoom prototype as a high-performance platform for DIA proteomics and establish a generalizable framework for ion-based evaluation of mass spectrometer performance.
HostingRepository	PanoramaPublic
AnnounceDate	2025-10-22
AnnouncementXML	Submission_2025-10-22_10:01:47.565.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Chris Hsu
SpeciesList	scientific name: Homo sapiens; NCBI TaxID: 9606; scientific name: Gallus gallus; NCBI TaxID: 9031;
ModificationList	Carbamidomethyl
Instrument	Orbitrap Astral; Orbitrap Astral Zoom; Stellar; Orbitrap Exploris 480; Orbitrap Ascend; Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2025-06-02 21:25:19	ID requested
1	2025-06-08 17:44:31	announced
⏵ 2	2025-10-22 10:01:48	announced	: Added PubMed Id

Hsu C, Shulman N, Stewart HI, Petzoldt J, Pashkova A, Plubell DL, Denisov E, Hagedorn B, Damoc NE, MacLean BX, Remes PM, Canterbury JD, Makarov AA, Hock C, Zabrouskov V, Wu CC, MacCoss MJ, Beyond Identification Lists. J Proteome Res, ():(2025) [pubmed]

submitter keyword: ions, calibration, poisson statistics, astral, astral zoom, instrument comparison

Michael MacCoss
contact affiliation	University of Washington
contact email	maccoss@uw.edu
lab head
Chris Hsu
contact affiliation	University of Washington
contact email	chrhsu@uw.edu
dataset submitter

Panorama Public dataset URI