Reanalysis of dataset PXD003791: “MuSt multiomics - Integrated multi-omics of the human gut microbiome in a case study of familial type 1 diabetes”

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.

本项目包含原始数据、中间文件与分析结果，系针对PRIDE数据集PXD003791中的公开数据集所开展的重新分析工作。原始文件采用ThermoRawFileParser、SearchGUI及PeptideShaker，按照标准参数进行处理（详见《数据处理规程》）。本次重分析工作隶属于MetaPUF（MetaProteomics with Unknown Function）项目，该项目由EMBL-EBI与卢森堡大学合作推进。本数据集的筛选遵循以下两项条件：1. 已在PRIDE数据库公开，且研究聚焦于人类肠道宏蛋白质组学；2. 对应的宏基因组组装序列可从ENA（European Nucleotide Archive，欧洲核苷酸档案馆）或MGnify获取。各样本的处理后肽段报告可在MGnify网站上以重叠群（contig）级别进行查看。本次重分析共从36个样本中鉴定出59613种独特蛋白质。