PXD034617

PXD034617 is an original dataset announced via ProteomeXchange.

Title	Reanalysis of dataset PXD003791: “MuSt multiomics - Integrated multi-omics of the human gut microbiome in a case study of familial type 1 diabetes”
Description	This project contains raw data, intermediate files and results is a re-analysis of the publicly available dataset from the PRIDE dataset PXD003791. 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 of the human gut; 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 59,613 unique proteins from 36 samples.
HostingRepository	PRIDE
AnnounceDate	2022-06-17
AnnouncementXML	Submission_2022-06-17_07:13:24.084.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Shengbo Wang
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2022-06-17 01:05:43	ID requested
⏵ 1	2022-06-17 07:13:24	announced

Dataset with its publication pending

submitter keyword: Metaproteomics, reanalysis, data integration

Juan Antonio Vizcaino
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
Shengbo Wang
contact affiliation	EMBL-EBI
contact email	shengbo_wang@ebi.ac.uk
dataset submitter

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/2022/06/PXD034617

PRIDE project URI

• PRIDE
  1. PXD034617
     1. Label: PRIDE project
     2. Name: Reanalysis of dataset PXD003791: “MuSt multiomics - Integrated multi-omics of the human gut microbiome in a case study of familial type 1 diabetes”