CSF biomarker discovery using label-free nano-LC-MS based proteomic profiling: Technical aspects

Jeffrey T.J. Huang, Therese McKenna, Chris Hughes, F. Markus Leweke, Emanuel Schwarz, Sabine Bahn

    Research output: Contribution to journalArticlepeer-review

    32 Citations (Scopus)


    Biomarker discovery in cerebrospinal fluid (CSF) can provide important information helping to diagnose and monitor disease progression in brain disorders. We present a label-free LC-MS strategy to investigate the proteomic profile of CSF. We provide a framework and protocol addressing quality control, sample replication steps and the adaptation of pattern recognition methods for the detection of experimental variation and (most importantly) putative biomarkers. This strategy was tested using a total of 20 CSF samples (ten samples from healthy volunteers and ten from schizophrenia patients). A clear difference was found between healthy volunteers and schizophrenia patients. With technical and biological variation controlled, we were able to detect 77 proteins with confidence in CSF, of which seven were newly identified, without prior depletion of abundant protein species. Our strategy provides a simple and controlled method for CSF biomarker discover.

    Original languageEnglish
    Pages (from-to)214-225
    Number of pages12
    JournalJournal of Separation Science
    Issue number2
    Publication statusPublished - 2 Feb 2007


    • Biomarker discovery
    • Cerebrospinal fluid
    • Label-free proteomics
    • Mass spectrometry

    ASJC Scopus subject areas

    • Analytical Chemistry
    • Filtration and Separation


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