Deep chemoproteomic analysis of LPS-stimulated RAW264.7 cell proteome

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UID: 11105

Author(s): Kentsis, Alex* * MSK affiliated

Description: Unanticipated regulatory protein modifications can be discovered from the unbiased comprehensive analysis of biological systems using SAMPEI. To explore this idea, we sought to map protein modifications induced during mammalian cell differentiation, modeled by the response of mouse RAW264.7 macrophage cells to lipopolysaccharide (LPS), a potent inducer of macrophage activation and differentiation that involves extensive protein and metabolic signaling.

Subject of Study

Subject(s)

Access via PRIDE

Accession #: PXD019853
Access Restrictions: Free to All
Access Instructions: All public datasets available in PRIDE Archive in the repository can be accessed via the website by FTP link, Web Service (for programmatic access), and the PRIDE Inspector stand-alone tool.
Associated Publications: Cifani P, Li Z, Luo D, Grivainis M, Intlekofer A, Fenyö D, Kentsis A. Discovery of protein modifications using differential tandem mass spectrometry proteomics. Journal of Proteome Research. 2021; 20(4):1835-1848.
Equipment Used: Orbitrap Fusion Lumos
Software Used: SAMPEI
open-source algorithm designed for the discovery of functional protein and peptide signaling modifications

X! Tandem
software that can match tandem mass spectra with peptide sequences, in a process that has come to be known as protein identification.
Dataset Format(s): RAW, TXT
Dataset Size: 66 GB

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