PXD038539 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Reanalysis of dataset PXD020692: “Washington state shellfish hatchery microbiome” |
Description | This project contains raw data, intermediate files and results is a re-analysis of the publicly available dataset from the PRIDE dataset PXD020692. The RAW files were processed using ThermoRawFileParser, SearchGUI and PeptideShaker through standard settings (see ‘Data Processing Protocol’). This reanalysis work is part of the MetaPUF (MetaProteomics with Unknown Function) project, which is a collaboration between EMBL-EBI and the University of Luxembourg. The dataset was selected with the following conditions: 1. It has been made publicly available in PRIDE and focuses on metaproteomics; 2. The corresponding metagenomics assemblies were also available from ENA (European Nucleotide Archive) or MGnify. The processed peptide reports for each sample are available to view at the contig level on the MGnify website. In total, the reanalysis identified 268 unique proteins from 36 samples. |
HostingRepository | PRIDE |
AnnounceDate | 2023-11-03 |
AnnouncementXML | Submission_2023-11-03_07:38:11.542.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | ShengboWang |
SpeciesList | scientific name: marine metagenome; NCBI TaxID: 408172; |
ModificationList | No PTMs are included in the dataset |
Instrument | Q Exactive HF |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2022-12-05 00:48:49 | ID requested | |
⏵ 1 | 2023-11-03 07:38:11 | announced | |
Publication List
Dataset with its publication pending |
Keyword List
submitter keyword: data integration,Metaproteomics, reanalysis |
Contact List
Juan AntonioVizcaino |
contact affiliation | European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK |
contact email | juan@ebi.ac.uk |
lab head | |
ShengboWang |
contact affiliation | EMBL-EBI |
contact email | shengbo_wang@ebi.ac.uk |
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/2023/11/PXD038539 |
PRIDE project URI |
Repository Record List
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[ - ]
- PRIDE
- PXD038539
- Label: PRIDE project
- Name: Reanalysis of dataset PXD020692: “Washington state shellfish hatchery microbiome”