PXD009144

PXD009144 is an original dataset announced via ProteomeXchange.

Title	Identification of proteomic markers in head and neck cancer using MALDI-MS Imaging, LC-MS/MS and IHC
Description	Purpose The heterogeneity of squamous cell carcinoma tissue complicates diagnosis and an individualized therapy to a great extent. Therefore it is of utmost importance to spatially characterize this tissue heterogeneity and to identify appropriate biomarkers. Matrix assisted laser desorption/ionization (MALDI) mass spectrometry imaging (MSI) can analyze spatially resolved tissue biopsies on a molecular level. Experimental design MALDI MSI of snap frozen tissues as well as of formalin-fixed and paraffin-embedded (FFPE) tissue samples from patients with head and neck cancer (HNC) were used to analyze m/z values localized in tumor and non-tumor regions. Peptide identification was performed by using liquid chromatography (LC)-MS/MS and immunohistochemistry (IHC). Results In both FFPE and frozen tissue specimen seven characteristic masses of the tumor epithelial region were found identified. Using LC-MS/MS, the peaks were identified as Vimentin, Keratin type II, Nucleolin, Heat shock protein 90, Prelamin-A/C, Junction plakoglobin and PGAM1. Finally, Vimentin, Nucleolin and PGAM1 were verified with IHC. Conclusions and Clinical Relevance The combination of MALDI MSI, LC-MS/MS and subsequent IHC is an appropriate tool to characterize the molecular heterogeneity of tissue as well as to identify new representative biomarkers for a more individualized therapy.
HostingRepository	PRIDE
AnnounceDate	2018-11-14
AnnouncementXML	Submission_2018-11-13_23:52:26.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Thomas Krüger
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2018-03-08 07:42:41	ID requested
⏵ 1	2018-11-13 23:52:27	announced

Hoffmann F, Umbreit C, Kr, ü, ger T, Pelzel D, Ernst G, Kniemeyer O, Guntinas-Lichius O, Berndt A, von Eggeling F, Identification of Proteomic Markers in Head and Neck Cancer Using MALDI-MS Imaging, LC-MS/MS, and Immunohistochemistry. Proteomics Clin Appl, 13(1):e1700173(2019) [pubmed]

curator keyword: Biomedical

submitter keyword: biomarker, cancer, MALDI-MS Imaging, LC-MS/MS, immunohistochemistry

Olaf Kniemeyer
contact affiliation	Stress- and Immunoproteomics Group, Molecular and Applied Microbiology Department, Leibniz Institute for Natural Product Research and Infection Biology - Hans Knöll Institute Jena
contact email	olaf.kniemeyer@leibniz-hki.de
lab head
Thomas Krüger
contact affiliation	Leibniz Institute for Natural Product Research and Infection Biology - Hans Knöll Institute
contact email	thomas.krueger@leibniz-hki.de
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD009144
     1. Label: PRIDE project
     2. Name: Identification of proteomic markers in head and neck cancer using MALDI-MS Imaging, LC-MS/MS and IHC