PXD033168 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Subtyping of cardiac amyloidosis by mass spectrometry-based proteomics of endomyocardial biopsies |
Description | Cardiac amyloidosis is a severe clinical condition leading to restrictive cardiomyopathy and heart failure. With increasing options for specific treatment of different cardiac amyloid diseases, correct amyloid subtyping is essential for clinical outcome. Mass spectrometry-based methods for cardiac amyloid subtyping have become important diagnostic tools but are currently used only in a few reference laboratories. Such methods typically include laser-capture microdissection to ensure the specific analysis of amyloid deposits. While this strategy effectively reduces background signals, it is a labor-intensive and costly procedure hampering the implementation of these methods into a wider group of laboratories. Here we introduce a more direct proteomics-based method for subtyping of cardiac amyloids. Endomyocardial biopsies were retrospectively analyzed from fresh frozen material of 78 patients with cardiac amyloidosis and from 12 biopsies of unused donor heart explants. Cryostat sections were directly digested with trypsin and analyzed with the nano-liquid chromatography (nLC-MS/MS), and the data were evaluated by a proteomic software. With a diagnostic threshold set to 70% for each of the four most common amyloid proteins affecting the heart (LC k, LC l, TTR and SAA), 65 of the cases (87%) could be diagnosed, and of these, 61 cases (94%) were in concordance with the original diagnoses. The specimens were also analyzed for the summed intensities of the amyloid signature proteins (ApoE, ApoA-IV and SAP). The summed intensities were significantly higher (p<0.001) for all assigned amyloid cases, whereas unassigned cases were not significantly different from controls and had lower signals than the assigned cases (p<0.001), suggesting that signature proteins can serve as in situ quality markers of cardiac amyloid deposits. We argue that this efficient workflow can be useful for disseminating proteomics for cardiac amyloid subtyping into accredited clinical laboratories. |
HostingRepository | PRIDE |
AnnounceDate | 2022-10-28 |
AnnouncementXML | Submission_2022-10-27_16:54:05.139.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | ProteomicsCore Facility |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | methylthiolated residue; monohydroxylated residue |
Instrument | Q Exactive HF |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2022-04-12 02:34:12 | ID requested | |
⏵ 1 | 2022-10-27 16:54:05 | announced | |
2 | 2023-11-14 08:24:19 | announced | 2023-11-14: Updated project metadata. |
Publication List
Noborn F, Thomsen C, Vorontsov E, Bobbio E, Sihlbom C, Nilsson J, Polte CL, Bollano E, Vukusic K, Sandstedt J, Dellgren G, Karason K, Oldfors A, Larson G, Subtyping of cardiac amyloidosis by mass spectrometry-based proteomics of endomyocardial biopsies. Amyloid, 30(1):96-108(2023) [pubmed] |
Keyword List
submitter keyword: subtyping, proteomics, endomyocardial biopsies, mass spectrometry,cardiac amyloidosis |
Contact List
CarinaSihlbom |
contact affiliation | Proteomics Core Facility, University of Gothenburg, Sweden |
contact email | carina.sihlbom@gu.se |
lab head | |
ProteomicsCore Facility |
contact affiliation | SAMBIO Core Facilities, Sahgrenska Academy, University of Gothenburg |
contact email | gupcf@outlook.com |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD033168
- Label: PRIDE project
- Name: Subtyping of cardiac amyloidosis by mass spectrometry-based proteomics of endomyocardial biopsies