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DataSet Summary

  • HostingRepository: PRIDE
  • AnnounceDate: 2018-05-21
  • AnnouncementXML: Submission_2018-05-21_02:48:44.xml
  • DigitalObjectIdentifier:
  • ReviewLevel: Peer-reviewed dataset
  • DatasetOrigin: Original data
  • RepositorySupport: Unsupported dataset by repository
  • PrimarySubmitter: Manuel Kleiner
  • Title: Proteomes of twenty bacterial, archaeal and eukaryotic species for bench marking of Direct Protein-SIF (stable carbon isotope fingerprinting proteomics)
  • Description: We developed a method that allows measuring the stable carbon isotope composition of individual species in microbial communities using metaproteomics. We call this methods “Direct Protein-SIF”. To benchmark this method, we measured twenty pure culture species using the Direct Protein-SIF method as well as Isotope Ratio Mass Spectrometry. Some of the pure cultures were measured in technical replicates to see how consistent Protein-SIF measurements are between mass spec runs. This submission thus contains 29 raw files for the pure cultures. See table in the submission for details of which species was measured for which .raw file. We also included the Direct Protein-SIF specific isotope pattern files as well as the .mzML files and PSM files required as input for the Direct Protein-SIF software. In addition to the pure culture a protein reference material (MKH files) was measured. The respective .raw files and isotopic pattern files are also included in this submission (see publication for details on how the reference material is used to calibrate the method).
  • SpeciesList: scientific name: Chlamydomonas reinhardtii; NCBI TaxID: 3055; scientific name: Nitrososphaera viennensis; NCBI TaxID: 1034015; scientific name: Bacteria; NCBI TaxID: 2;
  • ModificationList: monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
  • Instrument: Q Exactive

Dataset History

VersionDatetimeStatusChangeLog Entry
02017-06-21 01:24:37ID requested
12018-05-21 02:48:44announced

Publication List

  1. Dataset with its publication pending

Keyword List

  1. curator keyword: Metaproteomics, Biological
  2. submitter keyword: LC-MS/MS, Metaproteomics, Protein-SIF, P-SIF, stable isotopes, stable carbon isotope fingerprinting

Contact List

    Marc Strous
    • contact affiliation: University of Calgary
    • contact email: mstrous@ucalgary.ca
    • lab head:
    Manuel Kleiner
    • contact affiliation: North Carolina State University
    • contact email: manuel_kleiner@ncsu.edu
    • dataset submitter:

Full Dataset Link List

  1. Dataset FTP location
  2. PRIDE project URI
Repository Record List
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