Three-dimensional dynamic views of proteomes as a novel readout for physiological and pathological alterations

Información del proyecto

Proteomes-in-3D

Identificador del acuerdo de subvención: 866004

DOI

10.3030/866004

Proyecto cerrado

Fecha de la firma de la CE 19 Febrero 2020

Fecha de inicio 1 Marzo 2020

Fecha de finalización 28 Febrero 2025

Financiado con arreglo a

• EXCELLENT SCIENCE - European Research Council (ERC)

Coste total

€ 2 000 000,00

Aportación de la UE

€ 2 000 000,00

Coordinado por

EIDGENOESSISCHE TECHNISCHE HOCHSCHULE ZUERICH
Switzerland

CORDIS proporciona enlaces a los documentos públicos y las publicaciones de los proyectos de los programas marco HORIZONTE.

Los enlaces a los documentos y las publicaciones de los proyectos del Séptimo Programa Marco, así como los enlaces a algunos tipos de resultados específicos, como conjuntos de datos y «software», se obtienen dinámicamente de OpenAIRE .

Publicaciones

Peer reviewed articles (21)

Mechanism of connexin channel inhibition by mefloquine and 2-aminoethoxydiphenyl borate

Autores: Pia Lavriha, Yufei Han, Xinyue Ding, Dina Schuster, Chao Qi, Anand Vaithia, Paola Picotti, Volodymyr M. Korkhov
Publicado en: PLOS ONE, Edición 19, 2024, Página(s) e0315510, ISSN 1932-6203
Editor: Public Library of Science
DOI: 10.1371/journal.pone.0315510

Systematic detection of functional proteoform groups from bottom-up proteomic datasets

Autores: Bludau, Isabell Frank, Max Dörig, Christian Cai, Yujia Heusel, Moritz Rosenberger, George Picotti, Paola Collins, Ben C. Röst, Hannes Aebersold, Ruedi
Publicado en: Nature Communications, Edición 20411723, 2021, ISSN 2041-1723
Editor: Nature Publishing Group
DOI: 10.1038/s41467-021-24030-x

An approach to characterize mechanisms of action of anti-amyloidogenic compounds in vitro and in situ

Autores: P. Stalder, T. Serdiuk, D. Ghosh, Y. Fleischmann, N. Ait-Bouziad, J.-P. Quast, L. Malinovska, A. Ouared, A. Davranche, W. Haenseler, C. Boudou, E. Tsika, J. Stöhr, R. Melki, R. Riek, N. de Souza, P. Picotti
Publicado en: npj Parkinson's Disease, Edición 11, 2025, ISSN 2373-8057
Editor: Springer Science and Business Media LLC
DOI: 10.1038/s41531-025-00966-5

Molecular and functional landscape of malignant serous effusions for precision oncology

Autores: Rebekka Wegmann, Lorenz Bankel, Yasmin Festl, Kate Lau, Sohyon Lee, Fabian Arnold, Valentina Cappelletti, Aaron Fehr, Paola Picotti, Konstantin J. Dedes, Daniel Franzen, Daniela Lenggenhager, Peter K. Bode, Martin Zoche, Holger Moch, Christian Britschgi, Berend Snijder
Publicado en: Nature Communications, Edición 15, 2024, ISSN 2041-1723
Editor: Nature Publishing Group
DOI: 10.1038/s41467-024-52694-8

Comparative analysis of the intracellular responses to disease-related aggregation-prone proteins

Autores: Melnik, Andre Cappelletti, Valentina Vaggi, Federico Piazza, Ilaria Tognetti, Marco Schwarz, Carmen Cereghetti, Gea Ahmed, Mennat A. Soste, Martin Matlack, Kent de Souza, Natalie Csikasz-Nagy, Attila Picotti, Paola
Publicado en: Journal of Proteomics, Edición 18743919, 2020, ISSN 1874-3919
Editor: Elsevier BV
DOI: 10.1016/j.jprot.2020.103862

USP16 counteracts mono-ubiquitination of RPS27a and promotes maturation of the 40S ribosomal subunit

Autores: Montellese, Christian van den Heuvel, Jasmin Ashiono, Caroline Dörner, Kerstin Melnik, André Jonas, Stefanie Zemp, Ivo Picotti, Paola Gillet, Ludovic C. Kutay, Ulrike
Publicado en: eLife, Edición 2050084X, 2020, ISSN 2050-084X
Editor: eLife Sciences Publications
DOI: 10.7554/elife.54435

Analysis of Limited Proteolysis-Coupled Mass Spectrometry Data

Autores: Luise Nagel, Jan Grossbach, Valentina Cappelletti, Christian Dörig, Paola Picotti, Andreas Beyer
Publicado en: Molecular & Cellular Proteomics, Edición 24, 2025, Página(s) 100934, ISSN 1535-9476
Editor: American Society for Biochemistry and Molecular Biology Inc.
DOI: 10.1016/j.mcpro.2025.100934

Global profiling of protein complex dynamics with an experimental library of protein interaction markers

Autores: Christian Dörig, Cathy Marulli, Thomas Peskett, Norbert Volkmar, Lorenzo Pantolini, Gabriel Studer, Camilla Paleari, Fabian Frommelt, Torsten Schwede, Natalie de Souza, Yves Barral, Paola Picotti
Publicado en: Nature Biotechnology, 2024, ISSN 1087-0156
Editor: Nature Publishing Group
DOI: 10.1038/s41587-024-02432-8

Combining data integration and molecular dynamics for target identification in α-Synuclein-aggregating neurodegenerative diseases: Structural insights on Synaptojanin-1 (Synj1).

Autores: Kirsten Jenkins; Teodora Mateeva; István Szabó; Andre Melnik; Paola Picotti; Attila Csikász-Nagy; Attila Csikász-Nagy; Edina Rosta
Publicado en: Computational and Structural Biotechnology Journal, Vol 18, Iss , Pp 1032-1042 (2020), Edición 20010370, 2020, ISSN 2001-0370
Editor: Elsevier
DOI: 10.3929/ethz-b-000465810

Comparative analysis of cancer cell responses to targeted radionuclide therapy (TRT) and external beam radiotherapy (EBRT)

Autores: Grzmil, Michal Boersema, Paul Sharma, Ashish Blanc, Alain Imobersteg, Stefan Pruschy, Martin Picotti, Paola Schibli, Roger Behe, Martin
Publicado en: Journal of Hematology & Oncology, Edición 17568722, 2022, ISSN 1756-8722
Editor: BioMed Central
DOI: 10.1186/s13045-022-01343-y

Combining CRISPRi and metabolomics for functional annotation of compound libraries

Autores: Miquel Anglada-Girotto; Gabriel Handschin; Karin Ortmayr; Adrian I. Campos; Ludovic Gillet; Pablo Manfredi; Claire V. Mulholland; Michael Berney; Urs Jenal; Paola Picotti; Mattia Zampieri
Publicado en: Nature Chemical Biology, 18 (5), Edición 15524469, 2022, ISSN 1552-4469
Editor: Springer Nature
DOI: 10.1038/s41589-022-00970-3

Dynamic 3D proteomes reveal protein functional alterations at high resolution in situ

Autores: Valentina Cappelletti, Thomas Hauser, Ilaria Piazza, Monika Pepelnjak, Liliana Malinovska, Tobias Fuhrer, Yaozong Li, Christian Dörig, Paul Boersema, Ludovic Gillet, Jan Grossbach, Aurelien Dugourd, Julio Saez-Rodriguez, Andreas Beyer, Nicola Zamboni, Amedeo Caflisch, Natalie de Souza, Paola Picotti
Publicado en: Cell, Edición 184/2, 2021, Página(s) 545-559.e22, ISSN 0092-8674
Editor: Cell Press
DOI: 10.1016/j.cell.2020.12.021

Systematic detection of functional proteoform groups from bottom-up proteomic datasets

Autores: Isabell Bludau; Isabell Bludau; Max Frank; Christian Dörig; Yujia Cai; Moritz Heusel; Moritz Heusel; George Rosenberger; George Rosenberger; Paola Picotti; Ben C. Collins; Ben C. Collins; Hannes L. Röst; Ruedi Aebersold; Ruedi Aebersold
Publicado en: Nature Communications, 12 (1), Edición 5, 2021, ISSN 2041-1723
Editor: Nature Publishing Group
DOI: 10.3929/ethz-b-000491987

Detecting Protein-Small Molecule Interactions Using Limited Proteolysis-Mass Spectrometry (LiP-MS).

Autores: Monika Pepelnjak; Natalie de Souza; Natalie de Souza; Paola Picotti
Publicado en: Trends in Biochemical Sciences, Edición 3, 2020, ISSN 0968-0004
Editor: Elsevier BV
DOI: 10.3929/ethz-b-000441347

A machine learning-based chemoproteomic approach to identify drug targets and binding sites in complex proteomes

Autores: Ilaria Piazza, Nigel Beaton, Roland Bruderer, Thomas Knobloch, Crystel Barbisan, Lucie Chandat, Alexander Sudau, Isabella Siepe, Oliver Rinner, Natalie de Souza, Paola Picotti, Lukas Reiter
Publicado en: Nature Communications, Edición 11/1, 2020, ISSN 2041-1723
Editor: Nature Publishing Group
DOI: 10.1038/s41467-020-18071-x

Global, in situ analysis of the structural proteome in individuals with Parkinson’s disease to identify a new class of biomarker

Autores: Mackmull, Marie-Therese Nagel, Luise Sesterhenn, Fabian Muntel, Jan Grossbach, Jan Stalder, Patrick Bruderer, Roland Reiter, Lukas van de Berg, Wilma D.J. de Souza, Natalie Beyer, Andreas Picotti, Paola
Publicado en: Nature Structural & Molecular Biology, Edición 14764687, 2022, ISSN 1476-4687
Editor: Springer Nature
DOI: 10.1038/s41594-022-00837-0

Pyruvate kinase variant of fission yeast tunes carbon metabolism, cell regulation, growth and stress resistance

Autores: Kamrad, Stephan Grossbach, Jan Rodríguez-López, Maria Mülleder, Michael Townsend, StJohn Cappelletti, Valentina Stojanovski, Gorjan Correia-Melo, Clara Picotti, Paola Beyer, Andreas Ralser, Markus Bähler, Jürg
Publicado en: Molecular Systems Biology, Edición 17444292, 2020, ISSN 1744-4292
Editor: Nature Publishing Group
DOI: 10.15252/msb.20199270

Deciphering the signaling network of breast cancer improves drug sensitivity prediction.

Autores: Marco Tognetti; Attila Gábor; Attila Gábor; Mi Yang; Mi Yang; Valentina Cappelletti; Jonas Windhager; Oscar M. Rueda; Konstantina Charmpi; Elham Esmaeilishirazifard; Elham Esmaeilishirazifard; Alejandra Bruna; Natalie de Souza; Natalie de Souza; Carlos Caldas; Carlos Caldas; Andreas Beyer; Paola Picotti; Julio Saez-Rodriguez; Julio Saez-Rodriguez; Bernd Bodenmiller
Publicado en: Cell Systems, 12 (5), Edición 24054720, 2021, ISSN 2405-4720
Editor: CellPress
DOI: 10.3929/ethz-b-000485506

Structure of Mycobacterium tuberculosis Cya, an evolutionary ancestor of the mammalian membrane adenylyl cyclases

Autores: Mehta, Ved Khanppnavar, Basavraj Schuster, Dina Kantarci, Ilayda Vercellino, Irene Kosturanova, Angela Iype, Tarun Stefanic, Sasa Picotti, Paola Korkhov, Volodymyr M.
Publicado en: eLife, Edición 2050084X, 2022, ISSN 2050-084X
Editor: eLife Sciences Publications
DOI: 10.7554/elife.77032

In situ analysis of osmolyte mechanisms of proteome thermal stabilization

Autores: Monika Pepelnjak, Britta Velten, Nicolas Näpflin, Tatjana von Rosen, Umberto Capasso Palmiero, Jeong Hoon Ko, Heather D. Maynard, Paolo Arosio, Eilika Weber-Ban, Natalie de Souza, Wolfgang Huber, Paola Picotti
Publicado en: Nature Chemical Biology, Edición 20, 2024, Página(s) 1053-1065, ISSN 1552-4450
Editor: Nature Publishing Group
DOI: 10.1038/s41589-024-01568-7

Reversible amyloids of pyruvate kinase couple cell metabolism and stress granule disassembly

Autores: Gea Cereghetti, Caroline Wilson-Zbinden, Vera M. Kissling, Maren Diether, Alexandra Arm, Haneul Yoo, Ilaria Piazza, Shady Saad, Paola Picotti, D. Allan Drummond, Uwe Sauer, Reinhard Dechant, Matthias Peter
Publicado en: Nature Cell Biology, Edición 23/10, 2021, Página(s) 1085-1094, ISSN 1465-7392
Editor: Nature Publishing Group
DOI: 10.1038/s41556-021-00760-4

Monographic books (1)

Limited Proteolysis-Mass Spectrometry to Identify Metabolite-Protein Interactions

Autores: Aleš Holfeld, Jan-Philipp Quast, Roland Bruderer, Lukas Reiter, Natalie de Souza & Paola Picotti
Publicado en: Cell-Wide Identification of Metabolite-Protein Interactions, 2022, ISBN 978-1-0716-2624-5
Editor: Springer Nature