PXD056327 is an
original dataset announced via ProteomeXchange.
Dataset Summary
| Title | Formaldehyde fixation helps preserve the proteome state during single-cell proteomics sample processing and analysis |
| Description | Mass spectrometry-based single-cell proteomics (SCP) is gaining momentum but remains limited to a few laboratories due to the high costs and specialized expertise required. The ability to send samples to specialized core facilities would benefit non-specialist labs and popularize SCP for biological applications. However, no methods have been tested in SCP to "freeze" the proteome state while maintaining cell integrity for transfer between labs or prolonged sorting using fluorescence-activated cell sorting (FACS). This study evaluates whether short-term formaldehyde (FA) fixation can maintain cell states for shipping and on-site sorting, processing, and mass spectrometry analysis. We demonstrate that short-term FA fixation does not significantly affect protein recovery, even without heating and strong detergents, and maintains analytical depth compared to classical workflows. Fixation also preserves drug-induced specific perturbations of protein abundance during cell sorting and sample preparation for SCP analysis. Our findings suggest that formaldehyde FA fixation can facilitate SCP by enabling sample shipping and prolonged sorting, potentially democratizing access to SCP technology and expanding its application in biological research, thereby accelerating discoveries in cell biology and personalized medicine. |
| HostingRepository | PRIDE |
| AnnounceDate | 2026-02-09 |
| AnnouncementXML | Submission_2026-02-09_05:53:10.744.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Unsupported dataset by repository |
| PrimarySubmitter | Ilaria Piga |
| SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: NEWT:9606; |
| ModificationList | acetylated residue; monohydroxylated residue |
| Instrument | Orbitrap Astral |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|
| 0 | 2024-09-27 06:03:18 | ID requested | |
| ⏵ 1 | 2026-02-09 05:53:11 | announced | |
Publication List
| Piga I, Koenig C, Lechner M, Sabatier P, Olsen JV, Formaldehyde Fixation Helps Preserve the Proteome State during Single-Cell Proteomics Sample Processing and Analysis. J Proteome Res, 24(4):1624-1635(2025) [pubmed] |
| 10.1021/acs.jproteome.4c00656; |
Keyword List
| submitter keyword: Single-cell proteomics, formaldehyde fixation, FACS, One-Tip |
Contact List
| Jesper Velgaard Olsen |
|---|
| contact affiliation | Novo Nordisk Foundation Center for Protein Research |
| contact email | jesper.Olsen@cpr.ku.dk |
| lab head | |
| Ilaria Piga |
|---|
| contact affiliation | CPR |
| contact email | ilaria.piga@cpr.ku.dk |
| dataset submitter | |
Full Dataset Link List
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://ftp.pride.ebi.ac.uk/pride/data/archive/2026/02/PXD056327 |
| PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD056327
- Label: PRIDE project
- Name: Formaldehyde fixation helps preserve the proteome state during single-cell proteomics sample processing and analysis
