PXD050781 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Spectral entropy as a measure of the metaproteome complexity |
Description | The diversity and complexity of the microbiome's genomic landscape are not always mirrored in its proteomic profile. Despite the anticipated proteomic diversity, observed complexities of microbiome sample are often lower than expected. Two main factors contribute to this discrepancy: limitations in mass spectrometry's detection sensitivity and bioinformatics challenges in metaproteomics identification. This study introduces a novel approach to evaluating sample complexity directly at the full mass spectrum (MS1) level rather than relying on peptide identifications. When analyzing under identical mass spectrometry conditions, microbiome samples displayed significantly higher complexity, as evidenced by the spectral entropy and peptide candidate entropy, compared to single-species samples. The research provides solid evidence for the complexity of microbiome in proteomics indicating the optimization potential of the bioinformatics workflow. |
HostingRepository | PRIDE |
AnnounceDate | 2024-05-27 |
AnnouncementXML | Submission_2024-05-27_12:57:04.546.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Haonan Duan |
SpeciesList | scientific name: gut metagenome; NCBI TaxID: 749906; |
ModificationList | No PTMs are included in the dataset |
Instrument | Orbitrap Exploris 480 |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2024-03-19 13:23:35 | ID requested | |
⏵ 1 | 2024-05-27 12:57:05 | announced | |
Publication List
10.1002/pmic.202300570; |
Duan H, Ning Z, Zhang A, Figeys D, Spectral entropy as a measure of the metaproteome complexity. Proteomics, 24(16):e2300570(2024) [pubmed] |
Keyword List
submitter keyword: bioinformatics, spectral entropy, metaproteomics |
Contact List
Daniel Figeys |
contact affiliation | Director and Professor, School of Pharmaceutical Sciences |
contact email | dfigeys@uottawa.ca |
lab head | |
Haonan Duan |
contact affiliation | School of Pharmaceutical Sciences, Faculty of Medicine, University of Ottawa, Ottawa, Ontario, Canada. |
contact email | hduan084@uottawa.ca |
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/2024/05/PXD050781 |
PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD050781
- Label: PRIDE project
- Name: Spectral entropy as a measure of the metaproteome complexity