Cell surface proteins are major targets of biomedical research due to their utility as cellular markers and their extracellular accessibility for pharmacological intervention. However, information about the cell surface protein repertoire (the surfaceome) of individual cells is only sparsely available. Here, we applied the Cell Surface Capture (CSC) technology to 41 human and 31 mouse cell types to generate a mass-spectrometry derived Cell Surface Protein Atlas (CSPA) providing cellular surfaceome snapshots at high resolution. The CSPA is presented in form of an easy-to-navigate interactive database, a downloadable data matrix and with tools for targeted surfaceome rediscovery (http://wlab.ethz.ch/cspa). The cellular surfaceome snapshots of different cell types, including cancer cells, resulted in a combined dataset of 1492 human and 1296 mouse cell surface glycoproteins, providing experimental evidence for their cell surface expression on different cell types, including 136 G-protein coupled receptors and 75 membrane receptor tyrosine-protein kinases. Integrated analysis of the CSPA reveals that the concerted biological function of individual cell types is mainly guided by quantitative rather than qualitative surfaceome differences. The CSPA will be useful for the evaluation of drug targets, for the improved classification of cell types and for a better understanding of the surfaceome and its concerted biological functions in complex signaling microenvironments.

Centre of Advanced Studies Faculty of Military Health Sciences University of Defense Hradec Kralove Czech Republic

Department of Biochemistry Medical College of Wisconsin Wisconsin Milwaukee United States of America

Department of Medicine Biological Chemistry and Biomedical Engineering Johns Hopkins University School of Medicine Baltimore Maryland United States of America

Institute for Biomaterials and Biomedical Engineering University of Toronto Toronto Canada

Institute of Molecular Systems Biology ETH Zurich Zurich Switzerland

Institute of Molecular Systems Biology ETH Zurich Zurich Switzerland; Center for Systems Physiology and Metabolic Diseases Zurich Switzerland; Faculty of Science University of Zurich Zurich Switzerland

Institute of Molecular Systems Biology ETH Zurich Zurich Switzerland; Department of Health Sciences and Technology BMPP ETH Zurich Zurich Switzerland

Institute of Molecular Systems Biology ETH Zurich Zurich Switzerland; Laboratory of Molecular Oncology University Hospital Zurich Zurich Switzerland

Institute of Molecular Systems Biology ETH Zurich Zurich Switzerland; Oncology Research Laboratory University Children Hospital Zurich Zurich Switzerland

Oncology Research Laboratory University Children Hospital Zurich Zurich Switzerland

SCRMC LKS Faculty of Medicine Hong Kong University Hong Kong Hong Kong SAR; Division of Cardiology Johns Hopkins University School of Medicine Baltimore Maryland United States of America

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Engaging T cells for cleanup

CD Maps-Dynamic Profiling of CD1-CD100 Surface Expression on Human Leukocyte and Lymphocyte Subsets