Integrative mechanistic and multi-omics Modelling of Antigen Presentation to predict epitope dynamics

Informazioni relative al progetto

IMAP

ID dell’accordo di sovvenzione: 945528

DOI

10.3030/945528

Data della firma CE 13 Ottobre 2020

Data di avvio 1 Aprile 2021

Data di completamento 31 Marzo 2026

Finanziato da

• EXCELLENT SCIENCE - European Research Council (ERC)

Costo totale

€ 1 495 000,00

Contributo UE

€ 1 495 000,00

Coordinato da

MAX-PLANCK-GESELLSCHAFT ZUR FORDERUNG DER WISSENSCHAFTEN EV
Germany

CORDIS fornisce collegamenti ai risultati finali pubblici e alle pubblicazioni dei progetti ORIZZONTE.

I link ai risultati e alle pubblicazioni dei progetti del 7° PQ, così come i link ad alcuni tipi di risultati specifici come dataset e software, sono recuperati dinamicamente da .OpenAIRE .

Pubblicazioni

Peer reviewed articles (14)

The maintenance of oocytes in the mammalian ovary involves extreme protein longevity

Autori: Katarina Harasimov, Rebecca L. Gorry, Luisa M. Welp, Sarah Mae Penir, Yehor Horokhovskyi, Shiya Cheng, Katsuyoshi Takaoka, Alexandra Stützer, Ann-Sophie Frombach, Ana Lisa Taylor Tavares, Monika Raabe, Sara Haag, Debojit Saha, Katharina Grewe, Vera Schipper, Silvio O. Rizzoli, Henning Urlaub, Juliane Liepe, Melina Schuh
Pubblicato in: Nature Cell Biology, Numero 26, 2024, Pagina/e 1124-1138, ISSN 1465-7392
Editore: Nature Publishing Group
DOI: 10.1038/s41556-024-01442-7

iBench: A ground truth approach for advanced validation of mass spectrometry identification method

Autori: John A. Cormican, Wai Tuck Soh, Michele Mishto, Juliane Liepe
Pubblicato in: Proteomics, Numero 16159853, 2022, ISSN 1615-9853
Editore: John Wiley & Sons Ltd.
DOI: 10.1002/pmic.202200271

Protein degradation by human 20S proteasomes elucidates the interplay between peptide hydrolysis and splicing

Autori: Wai Tuck Soh, Hanna P. Roetschke, John A. Cormican, Bei Fang Teo, Nyet Cheng Chiam, Monika Raabe, Ralf Pflanz, Fabian Henneberg, Stefan Becker, Ashwin Chari, Haiyan Liu, Henning Urlaub, Juliane Liepe, Michele Mishto
Pubblicato in: Nature Communications, Numero 15, 2024, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-024-45339-3

Database search engines and target database features impinge upon the identification of post-translationally cis-spliced peptides in HLA class I immunopeptidomes

Autori: Michele Mishto, Yehor Horokhovskyi, John A. Cormican, Xiaoping Yang, Steven Lynham, Henning Urlaub, Juliane Liepe
Pubblicato in: Proteomics, Numero 16159853, 2022, Pagina/e 2100226, ISSN 1615-9853
Editore: John Wiley & Sons Ltd.
DOI: 10.1002/pmic.202100226

Chemical crosslinking extends and complements UV crosslinking in analysis of RNA/DNA nucleic acid–protein interaction sites by mass spectrometry

Autori: Luisa M Welp, Alexander Wulf, Aleksandar Chernev, Yehor Horokhovskyi, Sergei Moshkovskii, Olexandr Dybkov, Piotr Neumann, Martin Pašen, Arslan Siraj, Monika Raabe, Henri Göthert, James L Walshe, Deliana A Infante, Ana C de A.P. Schwarzer, Achim Dickmanns, Sven Johannsson, Jana Schmitzová, Ingo Wohlgemuth, Eugen Netz, Yi He, Kai Fritzemeier, Bernard Delanghe, Rosa Viner, Seychelle M Vos,
Pubblicato in: Nucleic Acids Research, Numero 53, 2025, ISSN 0305-1048
Editore: Oxford University Press
DOI: 10.1093/nar/gkaf727

An Automated Workflow to Address Proteome Complexity and the Large Search Space Problem in Proteomics and HLA-I Immunopeptidomics

Autori: Yehor Horokhovskyi, Hanna P. Roetschke, John A. Cormican, Martin Pašen, Sina Garazhian, Michele Mishto, Juliane Liepe
Pubblicato in: Molecular & Cellular Proteomics, Numero 24, 2025, Pagina/e 101039, ISSN 1535-9476
Editore: American Society for Biochemistry and Molecular Biology Inc.
DOI: 10.1016/j.mcpro.2025.101039

Predicting the success of Fmoc-based peptide synthesis.

Autori: Ilanit Gutman; Ron Gutman; John Sidney; Leila Chihab; Michele Mishto; Juliane Liepe; Anthony Chiem; Jason Greenbaum; Zhen Yan; Alessandro Sette; Zeynep Koşaloğlu-Yalçın; Bjoern Peters
Pubblicato in: ACS Omega, Numero 24701343, 2022, ISSN 2470-1343
Editore: American Chemical Society
DOI: 10.25418/crick.20376597.v1

A roadmap for ribosome assembly in human mitochondria

Autori: Elena Lavdovskaia, Elisa Hanitsch, Andreas Linden, Martin Pašen, Venkatapathi Challa, Yehor Horokhovskyi, Hanna P. Roetschke, Franziska Nadler, Luisa Welp, Emely Steube, Marleen Heinrichs, Mandy Mong-Quyen Mai, Henning Urlaub, Juliane Liepe, Ricarda Richter-Dennerlein
Pubblicato in: Nature Structural & Molecular Biology, Numero 31, 2024, Pagina/e 1898-1908, ISSN 1545-9993
Editore: Nature Publishing Group
DOI: 10.1038/s41594-024-01356-w

Response: Commentary: An In Silico–In Vitro Pipeline Identifying an HLA-A*02:01+ KRAS G12V+ Spliced Epitope Candidate for a Broad Tumor-Immune Response in Cancer Patients

Autori: Michele Mishto, Guillermo Rodriguez-Hernandez, Jacques Neefjes, Henning Urlaub, Juliane Liepe4*
Pubblicato in: Frontiers in Immunology, Numero 12, 2021, ISSN 1664-3224
Editore: Lausanne: Frontiers Media S.A., 2010-
DOI: 10.3389/fimmu.2021.679836

Proteasome isoforms in human thymi and mouse models

Autori: Michele Mishto, Iina Takala, Paola Bonfanti, Juliane Liepe
Pubblicato in: Immunology Letters, Numero 269, 2025, Pagina/e 106899, ISSN 0165-2478
Editore: Elsevier BV
DOI: 10.1016/j.imlet.2024.106899

PEPSeek-Mediated Identification of Novel Epitopes From Viral and Bacterial Pathogens and the Impact on Host Cell Immunopeptidomes

Autori: John A. Cormican, Lobna Medfai, Magdalena Wawrzyniuk, Martin Pašen, Hassnae Afrache, Constance Fourny, Sahil Khan, Pascal Gneiße, Wai Tuck Soh, Arianna Timelli, Emanuele Nolfi, Yvonne Pannekoek, Andrew Cope, Henning Urlaub, Alice J.A.M. Sijts, Michele Mishto, Juliane Liepe
Pubblicato in: Molecular & Cellular Proteomics, Numero 24, 2025, Pagina/e 100937, ISSN 1535-9476
Editore: American Society for Biochemistry and Molecular Biology Inc.
DOI: 10.1016/j.mcpro.2025.100937

Potential Mimicry of Viral and Pancreatic β Cell Antigens Through Non-Spliced and cis-Spliced Zwitter Epitope Candidates in Type 1 Diabetes

Autori: Michele Mishto, Artem Mansurkhodzhaev, Teresa Rodriguez-Calvo, Juliane Liepe
Pubblicato in: Front. Immunol., Numero 16643224, 2021, ISSN 1664-3224
Editore: Lausanne: Frontiers Media S.A., 2010-
DOI: 10.3389/fimmu.2021.656451

InvitroSPI and a large database of proteasome-generated spliced and non-spliced peptides

Autori: Hanna P. Roetschke; Guillermo Rodriguez-Hernandez; John A. Cormican; Xiaoping Yang; Steven Lynham; Michele Mishto; Juliane Liepe
Pubblicato in: Scientific Data, Numero 1, 2023, ISSN 2052-4463
Editore: Nature Publishing Group, 2014-
DOI: 10.1038/s41597-022-01890-6

inSPIRE: An open-source tool for increased mass spectrometry identification rates using Prosit spectral prediction

Autori: John A. Cormican, Yehor Horokhovskyi, Wai Tuck Soh, Michele Mishto, Juliane Liepe
Pubblicato in: Molecular & Cellular Proteomics, Numero 15359476, 2022, ISSN 1535-9476
Editore: American Society for Biochemistry and Molecular Biology Inc.
DOI: 10.1016/j.mcpro.2022.100432