Advanced Proteomics
Funding period: 2017-2025

Project Leaders
Abstract
Project Z04 will provide access to a platform for mass spectrometry-based proteome analysis. The group has a longstanding interest and expertise in the development and application of innovative proteomic methods, aimed to gain insight in proteome dynamics, to characterize specific sub-proteomes, to enable low-input proteome analysis, and to streamline sample handling in automated workflows. Support for global proteome profiling, nascent proteomics, secretome analysis, and identification of protein interactions will be provided to gain a better understanding of Wnt signaling, trafficking and downstream signaling. In addition, technologies for temporal and spatial proteome analysis will be advanced to uncover the dynamics of Wnt signaling.

Project-related Publications
DEAD box RNA helicases act as nucleotide exchange factors for casein kinase 2
Cracking chromatin with proteomics: From chromatome to histone modifications
Proteomics. 2022 May 28:e2100206. doi: 10.1002/pmic.202100206. Online ahead of print. PMID: 35633285
Learn moreGenomic rewiring of SOX2 chromatin interaction network during differentiation of ESCs to postmitotic neurons
Cell Syst. 2020 Jun 24;10(6):480-494.e8. doi: 10.1016/j.cels.2020.05.003. Epub 2020 Jun 17.
PMID: 32553182
Learn moreProtease‐resistant streptavidin for interaction proteomics
Rafiee MR, Sigismondo G, Kalxdorf M, Förster L, Brügger B, Béthune J, Krijgsveld J. Mol Syst Biol. 2020 May;16(5):e9370. PMID: 32400114
Learn moreMulti-level and lineage-specific interactomes of the Hox transcription factor Ubx contribute to its functional specificity
Nat Commun. 2020 Mar 13;11(1):1388. doi: 10.1038/s41467-020-15223-x. PMID: 32170121
Learn moreAutomated sample preparation with SP3 for low-input clinical proteomics
Mol Syst Biol. 2020 Jan;16(1):e9111. doi: 10.15252/msb.20199111. PMID: 32129943
Learn moreThe human RNAbinding proteome and its dynamics during arsenite-induced translational arrest
Cell. 2019 Jan 10;176(1-2):391-403.e19. doi: 10.1016/j.cell.2018.11.004. Epub 2018 Dec 6. PMID: 30528433
Learn moreSingle-pot, solid-phase-enhanced sample preparation for proteomics experiments
Spatial Tissue Proteomics Quantifies Inter- and Intratumor Heterogeneity in Hepatocellular Carcinoma (HCC)
Mol Cell Proteomics. 2018 Apr;17(4):810-825. doi: 10.1074/mcp.RA117.000189. Epub 2018 Jan 23. PMID: 29363612
Learn moreExpanding the circuitry of pluripotency by selective isolation of chromatin-associated proteins
Mol Cell. 2016 Nov 3;64(3):624-635. doi: 10.1016/j.molcel.2016.09.019. Epub 2016 Oct 20. PMID: 27773674
Learn more