Andrea Fossati, PhD
Collaborator
Business Service Ctr
Chancellor/EVC/FAS

Education & Training

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• PhD Proteomics and System Biology ETH Zurich 2020

Interests

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• System Biology
• Bioinformatic
• Interactomics
• Proteomics

Websites

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• @@andreafossati9 on Twitter (twitter.com)

Publications (21)

Top publication keywords:
Machine LearningChemical FractionationMass SpectrometryBacteriophagesChromatography, AffinityProteomicsPeptide HydrolasesInfluenza A Virus, H5N1 SubtypeProteomeHyperoxiaUltracentrifugationSoftwareProteinsDigestionChromatography, Gel

• DIP-MS: ultra-deep interaction proteomics for the deconvolution of protein complexes.
  Nature methods 2024 Frommelt F, Fossati A, Uliana F, Wendt F, Xue P, Heusel M, Wollscheid B, Aebersold R, Ciuffa R, Gstaiger M
• Longevity interventions modulate mechanotransduction and extracellular matrix homeostasis in C. elegans.
  Nature communications 2024 Teuscher AC, Statzer C, Goyala A, Domenig SA, Schoen I, Hess M, Hofer AM, Fossati A, Vogel V, Goksel O, Aebersold R, Ewald CY
• In vivo protein turnover rates in varying oxygen tensions nominate MYBBP1A as a mediator of the hyperoxia response.
  Science advances 2023 Chen X, Haribowo AG, Baik AH, Fossati A, Stevenson E, Chen YR, Reyes NS, Peng T, Matthay MA, Traglia M, Pico AR, Jarosz DF, Buchwalter A, Ghaemmaghami S, Swaney DL, Jain IH
• Multi-scale photocatalytic proximity labeling reveals cell surface neighbors on and between cells.
  bioRxiv : the preprint server for biology 2023 Lin Z, Schaefer K, Lui I, Yao Z, Fossati A, Swaney DL, Palar A, Sali A, Wells JA
• Proteomic and genetic analyses of influenza A viruses identify pan-viral host targets.
  Nature communications 2023 Haas KM, McGregor MJ, Bouhaddou M, Polacco BJ, Kim EY, Nguyen TT, Newton BW, Urbanowski M, Kim H, Williams MAP, Rezelj VV, Hardy A, Fossati A, Stevenson EJ, Sukerman E, Kim T, Penugonda S, Moreno E, …

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• SARS-CoV-2 variants evolve convergent strategies to remodel the host response.
  Cell 2023 Bouhaddou M, Reuschl AK, Polacco BJ, Thorne LG, Ummadi MR, Ye C, Rosales R, Pelin A, Batra J, Jang GM, Xu J, Moen JM, Richards AL, Zhou Y, Harjai B, Stevenson E, Rojc A, Ragazzini R, Whelan MVX, …
• Next-generation proteomics for quantitative Jumbophage-bacteria interaction mapping.
  Nature communications 2023 Fossati A, Mozumdar D, Kokontis C, Mèndez-Moran M, Nieweglowska E, Pelin A, Li Y, Guo B, Krogan NJ, Agard DA, Bondy-Denomy J, Swaney DL
• Rapid Profiling of Protein Complex Reorganization in Perturbed Systems.
  Journal of proteome research 2023 Bludau I, Nicod C, Martelli C, Xue P, Heusel M, Fossati A, Uliana F, Frommelt F, Aebersold R, Collins BC
• Phosphorylation-linked complex profiling identifies assemblies required for Hippo signal integration.
  Molecular systems biology 2023 Uliana F, Ciuffa R, Mishra R, Fossati A, Frommelt F, Keller S, Mehnert M, Birkeland ES, van Drogen F, Srejic N, Peter M, Tapon N, Aebersold R, Gstaiger M
• Next-generation interaction proteomics for quantitative Jumbophage-bacteria interaction mapping.
  bioRxiv : the preprint server for biology 2023 Fossati A, Mozumdar D, Kokontis C, Mèndez-Moran M, Nieweglowska E, Pelin A, Li Y, Guo B, Krogan NJ, Agard DA, Bondy-Denomy J, Swaney DL
• PCfun: a hybrid computational framework for systematic characterization of protein complex function.
  Briefings in bioinformatics 2022 Sharma VS, Fossati A, Ciuffa R, Buljan M, Williams EG, Chen Z, Shao W, Pedrioli PGA, Purcell AW, Martínez MR, Song J, Manica M, Aebersold R, Li C
• Publisher Correction: Evolution of enhanced innate immune evasion by SARS-CoV-2.
  Nature 2022 Thorne LG, Bouhaddou M, Reuschl AK, Zuliani-Alvarez L, Polacco B, Pelin A, Batra J, Whelan MVX, Hosmillo M, Fossati A, Ragazzini R, Jungreis I, Ummadi M, Rojc A, Turner J, Bischof ML, Obernier K, …
• Mutations in SARS-CoV-2 variants of concern link to increased spike cleavage and virus transmission.
  Cell host & microbe 2022 Escalera A, Gonzalez-Reiche AS, Aslam S, Mena I, Laporte M, Pearl RL, Fossati A, Rathnasinghe R, Alshammary H, van de Guchte A, Farrugia K, Qin Y, Bouhaddou M, Kehrer T, Zuliani-Alvarez L, Meekins DA,…
• Evolution of enhanced innate immune evasion by SARS-CoV-2.
  Nature 2021 Thorne LG, Bouhaddou M, Reuschl AK, Zuliani-Alvarez L, Polacco B, Pelin A, Batra J, Whelan MVX, Hosmillo M, Fossati A, Ragazzini R, Jungreis I, Ummadi M, Rojc A, Turner J, Bischof ML, Obernier K, …
• Toward Comprehensive Plasma Proteomics by Orthogonal Protease Digestion.
  Journal of proteome research 2021 Fossati A, Richards AL, Chen KH, Jaganath D, Cattamanchi A, Ernst JD, Swaney DL
• CryoEM and AI reveal a structure of SARS-CoV-2 Nsp2, a multifunctional protein involved in key host processes.
  Research square 2021 Gupta M, Azumaya CM, Moritz M, Pourmal S, Diallo A, Merz GE, Jang G, Bouhaddou M, Fossati A, Brilot AF, Diwanji D, Hernandez E, Herrera N, Kratochvil HT, Lam VL, Li F, Li Y, Nguyen HC, Nowotny C, …
• CryoEM and AI reveal a structure of SARS-CoV-2 Nsp2, a multifunctional protein involved in key host processes.
  bioRxiv : the preprint server for biology 2021 Gupta M, Azumaya CM, Moritz M, Pourmal S, Diallo A, Merz GE, Jang G, Bouhaddou M, Fossati A, Brilot AF, Diwanji D, Hernandez E, Herrera N, Kratochvil HT, Lam VL, Li F, Li Y, Nguyen HC, Nowotny C, …
• PCprophet: a framework for protein complex prediction and differential analysis using proteomic data.
  Nature methods 2021 Fossati A, Li C, Uliana F, Wendt F, Frommelt F, Sykacek P, Heusel M, Hallal M, Bludau I, Capraz T, Xue P, Song J, Wollscheid B, Purcell AW, Gstaiger M, Aebersold R
• Mapping specificity, cleavage entropy, allosteric changes and substrates of blood proteases in a high-throughput screen.
  Nature communications 2021 Uliana F, Vizovišek M, Acquasaliente L, Ciuffa R, Fossati A, Frommelt F, Goetze S, Wollscheid B, Gstaiger M, De Filippis V, Auf dem Keller U, Aebersold R
• System-Wide Profiling of Protein Complexes Via Size Exclusion Chromatography-Mass Spectrometry (SEC-MS).
  Methods in molecular biology (Clifton, N.J.) 2021 Fossati A, Frommelt F, Uliana F, Martelli C, Vizovisek M, Gillet L, Collins B, Gstaiger M, Aebersold R
• Sequence-specific transcription factor NF-Y displays histone-like DNA binding and H2B-like ubiquitination.
  Cell 2013 Nardini M, Gnesutta N, Donati G, Gatta R, Forni C, Fossati A, Vonrhein C, Moras D, Romier C, Bolognesi M, Mantovani R