Faecal proteomics: A tool to investigate dysbiosis and inflammation in patients with cystic fibrosis

Background: Several microbial studies reported gut microbiota dysbiosis in patients with cystic fibrosis (CF). The functional consequences of this phenomenon are poorly understood. Faecal metaproteomics allows the quantitative analysis of host and microbial proteins to address functional changes resulting from this dysbiosis.


The Unipept web application supports biodiversity analysis of large and complex metaproteome samples. Its underlying index structure is designed to quickly retrieve all occurrences of a tryptic peptide in UniProtKB records. Taxon-specificity of the tryptic peptide is successively derived from these occurrences using a novel lowest common ancestor approach that is robust against taxonomic misarrangements, misidentifications and inaccuracies. Not taking into account this identification noise would otherwise result in drastic loss of information.

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