Cerebrospinal fluid (CSF) is a water-like, colorless fluid that circulates within the brain ventricles and subarachnoid spaces and surrounds the parenchyma of both the brain and spinal cord. CSF is mainly formed at the choroid plexus in the brain ventricles and contains a large number of proteins that originate from blood. A small amount of CSF is also derived from the extracellular fluid of brain tissue, which contains proteins released by the cells of central nervous system (CNS). These CNS proteins in CSF may be altered in disease states and are believed to be a rich source of CNS-related disease biomarkers.
The recent rapid development of LC-MS/MS technologies has provided a powerful discovery platform that allows for the global proteomic coverage of CSF proteins. High pH reverse-phase liquid chromatography (hp-RPLC) is well established as a first-dimension peptide fractionation method that can be coupled with routine nano-RPLC-MS/MS. The TripleTOF 5600 systemcombines high resolution and mass accuracy with high rates of MS/MS acquisition, and provides a desirable discovery platform for the in-depth profiling of complex biological mixtures. Based on the combination of hp-RPLC and TripleTOF 5600, we have comprehensively profiled the normal CSF proteome at a high resolution of MS and MS/MS detection. Herein, a dataset of Chinese human normal CSF proteome, including 3337 non-redundant proteins (2513 with more than 2 unique peptideis),42,251 peptides and 295,757 MS/MS spectra, were presented and available for freely downloaded. This dataset will offer a useful baseline reference for CSF biomarker discovery and provide insight into the further understanding of CSF physiology.