Publications by authors named "Ruedi Aebersold"

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Initial recommendations for performing, benchmarking and reporting single-cell proteomics experiments.
Laurent Gatto, Ruedi Aebersold, Juergen Cox, Vadim Demichev, Jason Derks, Edward Emmott, Alexander M Franks, Alexander R Ivanov, Ryan T Kelly, Luke Khoury

Nat Methods· March 2023

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NAD⁺ repletion improves mitochondrial and stem cell function and enhances life span in mice.
Hongbo Zhang, Dongryeol Ryu, Yibo Wu, Karim Gariani, Xu Wang, Peiling Luan, Davide D'Amico, Eduardo R Ropelle, Matthias P Lutolf, Ruedi Aebersold

June 2016

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Correction: Proteomic-based stratification of intermediate-risk prostate cancer patients.
Qing Zhong, Rui Sun, Adel T Aref, Zainab Noor, Asim Anees, Ruedi Aebersold

Life Sci Alliance· February 2026

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Molecular Systems Biology at 20: reflecting on the past, envisioning the future.
Poonam Bheda, Jingyi Hou, Ruedi Aebersold, Uri Alon, Joel S Bader

Mol Syst Biol· December 2025

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Complex Assembly and Activity States as Multifaceted Protein Attributes Explaining Phenotypic Variability.
George Rosenberger, Peng Xue, Isabell Bludau, Claudia Martelli, Evan Williams, Ruedi Aebersold

bioRxiv· September 2025

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A highly sensitive protein-RNA cross-linking mass spectrometry workflow with enhanced structural modeling potential.
Chris P Sarnowski, Anna Knörlein, Tebbe de Vries, Michael Götze, Irene Beusch, Ruedi Aebersold

Nucleic Acids Res· June 2025

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A tissue-specific atlas of protein-protein associations enables prioritization of candidate disease genes.
Diederik S Laman Trip, Marc van Oostrum, Danish Memon, Fabian Frommelt, Delora Baptista, Ruedi Aebersold

Nat Biotechnol· May 2025

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Depletion-dependent activity-based protein profiling using SWATH/DIA-MS detects serine hydrolase lipid remodeling in lung adenocarcinoma progression.
Tatjana Sajic, Matej Vizovišek, Stephan Arni, Rodolfo Ciuffa, Martin Mehnert, Ruedi Aebersold

Nat Commun· May 2025

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Characterization of the N- and C-terminal domain interface of the three main apoE isoforms: A combined quantitative cross-linking mass spectrometry and molecular modeling study.
Azadeh Mohammadi, Stéphanie Deroo, Alexander Leitner, Florian Stengel, Eva-Maria Krammer, Ruedi Aebersold

Biochim Biophys Acta Gen Subj· April 2025

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Author Correction: π-HuB: the proteomic navigator of the human body.
Fuchu He, Ruedi Aebersold, Mark S Baker, Xiuwu Bian, Xiaochen Bo

Nature· January 2025

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The 2024 Report on the Human Proteome from the HUPO Human Proteome Project.
Gilbert S Omenn, Sandra Orchard, Lydie Lane, Cecilia Lindskog, Charles Pineau, Ruedi Aebersold

J Proteome Res· December 2024

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π-HuB: the proteomic navigator of the human body.
Fuchu He, Ruedi Aebersold, Mark S Baker, Xiuwu Bian, Xiaochen Bo

Nature· December 2024

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Author Correction: From coarse to fine: the absolute Escherichia coli proteome under diverse growth conditions.
Matteo Mori, Zhongge Zhang, Amir Banaei-Esfahani, Jean-Benoît Lalanne, Hiroyuki Okano, Ruedi Aebersold

Mol Syst Biol· November 2024

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AI-empowered perturbation proteomics for complex biological systems.
Liujia Qian, Rui Sun, Ruedi Aebersold, Peter Bühlmann, Chris Sander

Cell Genom· November 2024

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Waves of regulated protein expression and phosphorylation rewire the proteome to drive gametogenesis in budding yeast.
Rahel Wettstein, Jannik Hugener, Ludovic Gillet, Yi Hernández-Armenta, Adrian Henggeler, Ruedi Aebersold

Dev Cell· July 2024

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DIP-MS: ultra-deep interaction proteomics for the deconvolution of protein complexes.
Fabian Frommelt, Andrea Fossati, Federico Uliana, Fabian Wendt, Peng Xue, Ruedi Aebersold

Nat Methods· April 2024

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Proteomic-based stratification of intermediate-risk prostate cancer patients.
Qing Zhong, Rui Sun, Adel T Aref, Zainab Noor, Asim Anees, Ruedi Aebersold

Life Sci Alliance· February 2024

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The 2023 Report on the Proteome from the HUPO Human Proteome Project.
Gilbert S Omenn, Lydie Lane, Christopher M Overall, Cecilia Lindskog, Charles Pineau, Ruedi Aebersold

J Proteome Res· February 2024

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Proteomic Profiling of Advanced Melanoma Patients to Predict Therapeutic Response to Anti-PD-1 Therapy.
Nina Zila, Ossia M Eichhoff, Irene Steiner, Thomas Mohr, Andrea Bileck, Ruedi Aebersold

Clin Cancer Res· January 2024

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Longevity interventions modulate mechanotransduction and extracellular matrix homeostasis in C. elegans.
Alina C Teuscher, Cyril Statzer, Anita Goyala, Seraina A Domenig, Ingmar Schoen, Ruedi Aebersold

Nat Commun· January 2024

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Functional and spatial proteomics profiling reveals intra- and intercellular signaling crosstalk in colorectal cancer.
Christina Plattner, Giorgia Lamberti, Peter Blattmann, Alexander Kirchmair, Dietmar Rieder, Ruedi Aebersold

iScience· December 2023

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A computational framework for the inference of protein complex remodeling from whole-proteome measurements.
Marija Buljan, Amir Banaei-Esfahani, Peter Blattmann, Fabienne Meier-Abt, Wenguang Shao, Ruedi Aebersold

Nat Methods· October 2023

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Integrative solution structure of PTBP1-IRES complex reveals strong compaction and ordering with residual conformational flexibility.
Georg Dorn, Christoph Gmeiner, Tebbe de Vries, Emil Dedic, Mihajlo Novakovic, Ruedi Aebersold

Nat Commun· October 2023

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Proteomic Dynamics of Breast Cancer Cell Lines Identifies Potential Therapeutic Protein Targets.
Rui Sun, Weigang Ge, Yi Zhu, Azin Sayad, Augustin Luna, Ruedi Aebersold

Mol Cell Proteomics· August 2023

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Genetic effects on molecular network states explain complex traits.
Matthias Weith, Jan Großbach, Mathieu Clement-Ziza, Ludovic Gillet, María Rodríguez-López, Ruedi Aebersold

Mol Syst Biol· August 2023

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A DNA-PK phosphorylation site on MET regulates its signaling interface with the DNA damage response.
Jonas P Koch, Selina M Roth, Aurélie Quintin, Jacopo Gavini, Eleonora Orlando, Ruedi Aebersold, Daniel M Aebersold

Oncogene· June 2023

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M. tuberculosis relies on trace oxygen to maintain energy homeostasis and survive in hypoxic environments.
Nitin Pal Kalia, Samsher Singh, Kiel Hards, Chen-Yi Cheung, Ekaterina Sviriaeva, Ruedi Aebersold

Cell Rep· May 2023

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