PXD064191
PXD064191 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | PSMtags improve peptide sequencing and throughput in sensitive proteomics |
| Description | Mass spectrometry-based proteomics enables comprehensive characterization of protein abundance, function, and interactions. Label-free approaches are simple to implement but challenging to scale to thousands of samples per day. Multiplexed techniques, such as plexDIA, can address these limitations but remain restricted by the lack of mass tags optimized for data-independent acquisition (DIA) workflows. Here, we present a systematic approach screening a library of 576 compounds that identifies several small molecules that, when conjugated to peptides, improve their detection and sequence identification by mass spectrometry. The lead molecule, PSMtag, substantially increases the detection of fragment b-ions, which increases the confidence of sequence identification and enhances de novo sequencing. PSMtags allow 9-plexDIA, using only stable isotopes of carbon, oxygen and nitrogen. As a result, it allows simultaneously increasing proteome coverage and sample throughput for plexDIA workflows without compromising quantitative accuracy. We demonstrate 240 samples-per-day with 9-plexDIA, while acquiring 28,359 protein data points in the same time label-free methods acquire 4,340. Our approach constitutes an expandable framework for designing mass tags to overcome existing limitations in multiplexed proteomics and provides plexDIA reagents capable of analyzing over 1,000 samples per day when using 10 minute runs. By facilitating higher throughput and improved identification, this innovation holds significant potential for accelerating proteomic studies across diverse biological and clinical applications. |
| HostingRepository | MassIVE |
| AnnounceDate | 2025-05-27 |
| AnnouncementXML | Submission_2025-05-27_12:52:55.957.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Non peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Unsupported dataset by repository |
| PrimarySubmitter | Mark Adamo |
| SpeciesList | scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606; scientific name: Saccharomyces cerevisiae; common name: baker's yeast; NCBI TaxID: 4932; |
| ModificationList | Carbamidomethyl; Oxidation |
| Instrument | Orbitrap Astral; timsTOF SCP; Orbitrap Exploris 240 |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2025-05-22 06:02:37 | ID requested | |
| ⏵ 1 | 2025-05-27 12:52:56 | announced |
Publication List
| no publication |
Keyword List
| submitter keyword: mass tag, multiplexing, DIA, fragmentation, throughput, DatasetType:Proteomics, single-cell |
Contact List
| Nikolai Slavov | |
|---|---|
| contact affiliation | Northeastern University |
| contact email | n.slavov@northeastern.edu |
| lab head | |
| Mark Adamo | |
| contact affiliation | Parallel Squared Technology Institute |
| contact email | madamo@parallelsq.org |
| dataset submitter | |
Full Dataset Link List
| MassIVE dataset URI |
| Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://massive-ftp.ucsd.edu/v09/MSV000097968/ |
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