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PXD050781

PXD050781 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleSpectral entropy as a measure of the metaproteome complexity
DescriptionThe 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.
HostingRepositoryPRIDE
AnnounceDate2024-05-27
AnnouncementXMLSubmission_2024-05-27_12:57:04.546.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterHaonan Duan
SpeciesList scientific name: gut metagenome; NCBI TaxID: 749906;
ModificationListNo PTMs are included in the dataset
InstrumentOrbitrap Exploris 480
Dataset History
RevisionDatetimeStatusChangeLog Entry
02024-03-19 13:23:35ID requested
12024-05-27 12:57:05announced
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 affiliationDirector and Professor, School of Pharmaceutical Sciences
contact emaildfigeys@uottawa.ca
lab head
Haonan Duan
contact affiliationSchool of Pharmaceutical Sciences, Faculty of Medicine, University of Ottawa, Ottawa, Ontario, Canada.
contact emailhduan084@uottawa.ca
dataset submitter
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Dataset FTP location
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PRIDE project URI
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