Reanalysis of PXD024174

This repository contains a dataset analyzed in "De novo peptide databases enable protein-based stable isotope probing of microbial communities with up to species-level resolution". Specifically, this repository contains the reanalysis of the protein-SIP data obtained from PXD024174 ("Mock microbial community with spike-ins of 13C-labeled Escherichia coli cells for benchmarking of protein-based stable isotope probing proteomics (Protein-SIP)") that was published in Kleiner M, Kouris A, Violette M, D'Angelo G, Liu Y, Korenek A, Tolić N, Sachsenberg T, McCalder J, Lipton MS, Strous M. Ultra-sensitive isotope probing to quantify activity and substrate assimilation in microbiomes. Microbiome. 2023 11(1):24. mztab files originate from Casanovo tsv files originate from PepNet xlsx files originate from merging Unipept and MetaProSIP output and BLASTp of peptides not referenced in the reference database nor UniProt.