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PXD000240

DataSet Summary

  • HostingRepository: PRIDE
  • AnnounceDate: 2014-08-08
  • AnnouncementXML: Submission_2014-08-08_00:30:53.xml
  • DigitalObjectIdentifier:
  • ReviewLevel: Peer-reviewed dataset
  • DatasetOrigin: Original data
  • RepositorySupport: Unsupported dataset by repository
  • PrimarySubmitter: Joshua Lichtman
  • Title: Host-centric proteomics of stool
  • Description: Soluble extra-cellular proteins and peptides from human and mouse stool were fractionated on a C-4 solid phase extraction cartidge, trypsin digested, C-18 clean up and identified with MS/MS on a LTQ-Velos Orbitrap. Data processing: The readRAW program was used to generate peak lists from the original data. All protein sequences were reversed and concatenated to the original forward-oriented proteins. Spectra were assigned to peptides using a semi-specific enzyme specificity with the Mascot search algorithm (version 2.3.01) using static carbamidomethylation of cysteines, differential oxidized methionines, 50ppm precursor mass tolerance, 2 miscleavages and 0.8Da fragment ion tolerance. Searched against a mouse or human database.
  • SpeciesList: scientific name: Homo sapiens (Human); NCBI TaxID: 9606; scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
  • ModificationList: monohydroxylated residue; iodoacetamide derivatized residue
  • Instrument: LTQ Orbitrap Velos

Dataset History

VersionDatetimeStatusChangeLog Entry
02013-05-04 15:39:17ID requested
12013-10-16 04:51:40announced
12013-10-16 05:31:19announced
22014-07-25 01:08:26announcedUpdated project metadata.
32014-08-08 00:30:54announcedUpdated project metadata.

Publication List

  1. Lichtman JS, Marcobal A, Sonnenburg JL, Elias JE, Host-centric proteomics of stool: a novel strategy focused on intestinal responses to the gut microbiota. Mol Cell Proteomics, 12(11):3310-8(2013) [pubmed]

Keyword List

  1. curator keyword: Biomedical, Biological
  2. submitter keyword: host response, gut microbiome, MS/MS, proteomics, mass spectrometry

Contact List

    Joshua Lichtman
    • contact affiliation: Stanford University, School of Medicine
    • contact email: jlichtma@stanford.edu
    • dataset submitter:

Full Dataset Link List

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