Dataset Information

Cell Surface Protein Atlas - A mass spectrometric-derived cell surface protein atlas

ABSTRACT: Cell Surface Capture (Wollscheid et al., 2009, Nat.biotec.) was performed on various different cell types in order to characterize the cell surface proteome and to build the Cell Surface Protein Atlas.

INSTRUMENT(S): LTQ FT, LTQ Orbitrap

ORGANISM(S): Homo Sapiens (human) Mus Musculus (mouse)

TISSUE(S): Ln-229 Cell, Hl-60 Cell, Natural Killer Cell, Pleural Mesothelioma Cell, Calu-3 Cell, Hela Cell, Embryonic Neural Stem Cell, A-431 Cell, Th17 Cell, T-98g Cell, Imr-32 Cell, Rcc 786-o Cell, Glioblastoma Cell Line, Subventricular Zone, Spleen, Th1-cell, Meningioma Cell, Nb-4 Cell, Embryonic Stem Cell Line, P493-6 Cell, U2-os Cell, U-87mg Cell, Melanoma Cell Line, L-540 Cell, J774.2 Cell, Km-h2 Cell, Neuroblastoma Cell Line, Pulmonary Artery Smooth Muscle Cell Line, L-428 Cell, Rh-4 Cell, Macrophage, Adipocyte, Es-d3 Cell, Hek-293 Cell, Es-e14 Cell, Astrocytoma Cell, Min-6 Cell, Embryonic Stem Cell, Helper T-lymphocyte, Rd Cell, C2c12 Cell, R1 Cell, U-251 Mg Cell, Jurkat E-6.1 Cell, Schwann Cell, B-cell Lymphoma Cell, Rhabdomyosarcoma Cell Line, Astroglia, Hodgkin Lymphoma Cell Line, Rh-28 Cell, B-lymphocyte, Neural Stem Cell, Pleural Mesothelioma Cell Line, Fibroblast, Ln-18 Cell, Hbl-1 Cell, Regulatory T-lymphocyte

SUBMITTER: Damaris Bausch-Fluck

LAB HEAD: Bernd Wollscheid

PROVIDER: PXD000589 | Pride | 2016-02-16

REPOSITORIES: Pride

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Dataset's files

Source:

			Action	DRS
	20080624_21_HL60_2.mzXML	Mzxml
	20081001_08_HL60_1.mzXML	Mzxml
	20081001_12_HL60_1.mzXML	Mzxml
	20081216_15_SUDHL6_1.mzXML	Mzxml
	20081216_18_SUDHL6_2.mzXML	Mzxml

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Publications

A mass spectrometric-derived cell surface protein atlas.

Bausch-Fluck Damaris D Hofmann Andreas A Bock Thomas T Frei Andreas P AP Cerciello Ferdinando F Jacobs Andrea A Moest Hansjoerg H Omasits Ulrich U Gundry Rebekah L RL Yoon Charles C Schiess Ralph R Schmidt Alexander A Mirkowska Paulina P Härtlová Anetta A Van Eyk Jennifer E JE Bourquin Jean-Pierre JP Aebersold Ruedi R Boheler Kenneth R KR Zandstra Peter P Wollscheid Bernd B

PloS one 20150420 3

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 surfaceo ...[more]

PMID: 25894527

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Project description:Naive CD4+ T cells are the common precursors of multiple effector and memory T cell subsets and possess a high plasticity in terms of differentiation potential. This stem-cell like character is important for cell therapies aiming at regeneration of specific immunity. Cell surface proteins are crucial for recognition and response to signals mediated by other cells or environmental changes. Knowledge of cell surface proteins of human naive CD4+ T cells and their changes during the early phase of T cell activation is urgently needed for a guided differentiation of naive T cells and may support the selection of pluripotent cells for cell therapy.<br>Periodate oxidation and aniline-catalyzed oxime ligation (PAL) technology was applied with subsequent quantitative LC-MS/MS (PAL-qLC-MS/MS) to generate a dataset describing the surface proteome of human naive CD4+ T cells and to monitor dynamic changes during the early phase of activation. This led to the identification of 173 N-glycosylated surface proteins, of which 24 were previously not known to be expressed on human naive CD4+ T cells or have no defined role within T cell activation. To independently confirm the proteomic dataset and to analyse the cell surface by an alternative technique a systematic phenotypic expression analysis of surface antigens via flow cytometry was performed. This screening expanded the previous dataset, resulting in 229 surface proteins which are expressed on naive unstimulated and activated CD4+ T cells. Furthermore, we generated a surface expression atlas based on transcriptome data, experimental annotation and predicted subcellular localization, and correlated the proteomics result with this transcriptional dataset.<br>This extensive surface atlas provides an overall naive CD4+ T cell surface resource and will enable future studies aiming at a deeper understanding of mechanisms of T cell biology allowing the identification of novel immune targets usable for the development of therapeutic treatments.