Career Accelerator for Research Infrastructure Scientists

Informazioni relative al progetto

ARISE

ID dell’accordo di sovvenzione: 945405

DOI

10.3030/945405

Data della firma CE 6 Maggio 2020

Data di avvio 1 Maggio 2021

Data di completamento 30 Aprile 2027

Finanziato da

• EXCELLENT SCIENCE - Marie Skłodowska-Curie Actions

Costo totale

€ 13 682 160,00

Contributo UE

€ 6 841 080,00

Coordinato da

EUROPEAN MOLECULAR BIOLOGY LABORATORY
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 .

Risultati finali

Documents, reports (4)

First call - Informing the Project Officer by sending the link to the Euraxess website where the Call has been published

First call - Inform the Project Officer about the publication of the call on the Euraxess website, by sending the link to the Euraxess website and a screen shot of the related call announcement

Fourth call - Informing the Project Officer by sending the link to the Euraxess website where the Call has been published

Fourth call - Inform the Project Officer about the publication of the call on the Euraxess website, by sending the link to the Euraxess website and a screen shot of the related call announcement

Third call - Informing the Project Officer by sending the link to the Euraxess website where the Call has been published

Third call Inform the Project Officer about the publication of the call on the Euraxess website by sending the link to the Euraxess website and a screen shot of the related call announcement

Second call - Informing the Project Officer by sending the link to the Euraxess website where the Call has been published

Second call Inform the Project Officer about the publication of the call on the Euraxess website by sending the link to the Euraxess website and a screen shot of the related call announcement

Pubblicazioni

Peer reviewed articles (23)

Assessment of Data-Independent Acquisition Mass Spectrometry (DIA-MS) for the Identification of Single Amino Acid Variants

Autori: Ivo Fierro-Monti, Klemens Fröhlich, Christian Schori, Alexander Schmidt
Pubblicato in: Proteomes, Numero 12, 2024, Pagina/e 33, ISSN 2227-7382
Editore: MDPI AG
DOI: 10.3390/proteomes12040033

MosaiCatcher v2: a single-cell structural variations detection and analysis reference framework based on Strand-seq

Autori: Thomas Weber, Marco Raffaele Cosenza, Jan Korbel
Pubblicato in: Bioinformatics, Numero 39, 2023, ISSN 1367-4811
Editore: Oxford University Press (OUP)
DOI: 10.1093/bioinformatics/btad633

The crystal structure of Nictaba reveals its carbohydrate-binding properties and a new lectin dimerization mode

Autori: Yehudi Bloch, Vinicius J S Osterne, Savvas N Savvides, Els J M Van Damme
Pubblicato in: Glycobiology, Numero 34, 2024, ISSN 1460-2423
Editore: Oxford University Press (OUP)
DOI: 10.1093/glycob/cwae087

Biophysical screening pipeline for Cryo-EM grid preparation of membrane proteins

Autori: Niebling S, Veith K, Vollmer B, Lizarrondo J, Burastero O, Schiller J, Struve García A, Lewe P, Seuring C, Witt S, García-Alai M.
Pubblicato in: Frontiers in Molecular Biosciences, 2022, ISSN 2296-889X
Editore: Frontiers Media S.A.
DOI: 10.3389/fmolb.2022.882288

Three-photon microscopy: an emerging technique for deep intravital brain imaging

Autori: Robert Prevedel, Júlia Ferrer Ortas, Jason N. D. Kerr, Jack Waters, Michael O. Breckwoldt, Benjamin Deneen, Michelle Monje, Stella J. Soyka, Varun Venkataramani
Pubblicato in: Nature Reviews Neuroscience, 2025, ISSN 1471-003X
Editore: Nature Publishing Group
DOI: 10.1038/s41583-025-00937-y

ChiraKit: an online tool for the analysis of circular dichroism spectroscopy data

Autori: Osvaldo Burastero, Nykola C Jones, Lucas A Defelipe, Uroš Zavrtanik, San Hadži, Søren Vrønning Hoffmann, Maria M Garcia-Alai
Pubblicato in: Nucleic Acids Research, 2025, ISSN 0305-1048
Editore: Oxford University Press
DOI: 10.1093/nar/gkaf350

Quantifying conformational changes in the TCR:pMHC-I binding interface

Autori: Benjamin McMaster, Christopher J. Thorpe, Jamie Rossjohn, Charlotte M. Deane, Hashem Koohy
Pubblicato in: Frontiers in Immunology, Numero 15, 2024, ISSN 1664-3224
Editore: Frontiers Media SA
DOI: 10.3389/fimmu.2024.1491656

RBPs: an RNA editor’s choice

Autori: Ivo Fierro-Monti
Pubblicato in: Frontiers in Molecular Biosciences, Numero 11, 2024, ISSN 2296-889X
Editore: Frontiers Media SA
DOI: 10.3389/fmolb.2024.1454241

Raynals, an online tool for the analysis of dynamic light scattering

Autori: Osvaldo Burastero, George Draper-Barr, Bertrand Raynal Maelenn Chevreuil, Patrick Englandc and Maria Garcia Alai
Pubblicato in: Acta Crystallographica Section D: Structural Biology, 2023, ISSN 2059-7983
Editore: IUCr/Wiley
DOI: 10.1107/s2059798323004862

Pervasive sublethal effects of agrochemicals on insects at environmentally relevant concentrations

Autori: Lautaro Gandara, Richard Jacoby, François Laurent, Matteo Spatuzzi, Nikolaos Vlachopoulos, Noa O. Borst, Gülina Ekmen, Clement M. Potel, Martin Garrido-Rodriguez, Antonia L. Böhmert, Natalia Misunou, Bartosz J. Bartmanski, Xueying C. Li, Dominik Kutra, Jean-Karim Hériché, Christian Tischer, Maria Zimmermann-Kogadeeva, Victoria A. Ingham, Mikhail M. Savitski, Jean-Baptiste Masson, Michael Zimm
Pubblicato in: Science, Numero 386, 2024, Pagina/e 446-453, ISSN 0036-8075
Editore: American Association for the Advancement of Science
DOI: 10.1126/science.ado0251

Identifying individuals using proteomics: are we there yet?

Autori: Ivo Fierro-Monti, James C Wright, Jyoti S Choudhary, Juan Antonio Vizcaíno
Pubblicato in: Frontiers in molecular biosciences, 2022, ISSN 2296-889X
Editore: Frontiers
DOI: 10.3389/fmolb.2022.1062031

Dataset from a human-in-the-loop approach to identify functionally important protein residues from literature

Autori: Melanie Vollmar, Santosh Tirunagari, Deborah Harrus, David Armstrong, Romana Gáborová, Deepti Gupta, Marcelo Querino Lima Afonso, Genevieve Evans, Sameer Velankar
Pubblicato in: Scientific Data, Numero 11, 2024, ISSN 2052-4463
Editore: Springer Science and Business Media LLC
DOI: 10.1038/s41597-024-03841-9

Europe PMC in 2023.

Autori: Summer Rosonovski , Maria Levchenko , Rajat Bhatnagar, Umamageswari Chandrasekaran, Lynne Faulk, Islam Hassan, Matt Jeffryes, Syed Irtaza Mubashar, Maaly Nassar , Madhumiethaa Jayaprabha Palanisamy, Michael Parkin, Jagadeeswararao Poluru, Frances Rogers, Shyamasree Saha, Mohamed Selim, Zunaira Shafique, Michele Ide-Smith, David Stephenson, Santosh Tirunagari, Aravind Venkatesan, Lijun Xing and Mel
Pubblicato in: Nucleic Acids Research, 2024, ISSN 0305-1048
Editore: Oxford University Press
DOI: 10.1093/nar/gkad1085

Mesoscopic axially swept oblique plane microscope for the imaging of freely moving organisms with near-isotropic resolution

Autori: Samuel Davis, Jon-Richard Sommernes, Sebastian Hambura, Levin Riedel, Alejandro Gil, Aissam Ikmi, Florian Ströhl, Robert Prevedel
Pubblicato in: Biomedical Optics Express, Numero 15, 2024, Pagina/e 6715, ISSN 2156-7085
Editore: The Optical Society
DOI: 10.1364/boe.537262

High-resolution X-ray phase-contrast tomography of human placenta with different wavefront markers

Autori: Sara Savatović, Davis Laundon, Fabio De Marco, Mirko Riedel, Jörg U. Hammel, Madleen Busse, Murielle Salomé, Lorella Pascolo, Irene Zanette, Rohan M. Lewis, Julia Herzen, Pierre Thibault
Pubblicato in: Scientific Reports, Numero 15, 2025, ISSN 2045-2322
Editore: Nature Publishing Group
DOI: 10.1038/s41598-025-85105-z

Cosolvent Sites-Based Discovery of<i>Mycobacterium Tuberculosis</i>Protein Kinase G Inhibitors

Autori: Osvaldo Burastero, Lucas A. Defelipe, Gabriel Gola, Nancy L. Tateosian, Elias D. Lopez, Camila Belen Martinena, Juan Pablo Arcon, Martín Dodes Traian, Diana E. Wetzler, Isabel Bento, Xavier Barril, Javier Ramirez, Marcelo A. Marti, Maria M. Garcia-Alai, Adrián G. Turjanski
Pubblicato in: Journal of Medicinal Chemistry, Numero 65, 2024, Pagina/e 9691-9705, ISSN 0022-2623
Editore: American Chemical Society
DOI: 10.1021/acs.jmedchem.1c02012

Subtleties in Clathrin heavy chain binding boxes provide selectivity among adaptor proteins of budding yeast

Autori: Lucas A. Defelipe, Katharina Veith, Osvaldo Burastero, Tatiana Kupriianova, Isabel Bento, Michal Skruzny, Knut Kölbel, Charlotte Uetrecht, Roland Thuenauer, Maria M. García-Alai
Pubblicato in: Nature Communications, Numero 15, 2024, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-024-54037-z

LitSumm: large language models for literature summarization of noncoding RNAs

Autori: Andrew Green, Carlos Eduardo Ribas, Nancy Ontiveros-Palacios, Sam Griffiths-Jones, Anton I Petrov, Alex Bateman, Blake Sweeney
Pubblicato in: Database, Numero 2025, 2025, ISSN 1758-0463
Editore: Oxford University Press
DOI: 10.1093/database/baaf006

<i>In situ</i> serial crystallography facilitates 96-well plate structural analysis at low symmetry

Autori: Nicolas Foos, Jean-Baptise Florial, Mathias Eymery, Jeremy Sinoir, Franck Felisaz, Marcus Oscarsson, Antonia Beteva, Matthew W. Bowler, Didier Nurizzo, Gergely Papp, Montserrat Soler-Lopez, Max Nanao, Shibom Basu, Andrew A. McCarthy
Pubblicato in: IUCrJ, Numero 11, 2024, Pagina/e 780-791, ISSN 2052-2525
Editore: International Union of Crystallography (IUCr)
DOI: 10.1107/s2052252524005785

Visualizing metagenomic and metatranscriptomic data: A comprehensive review

Autori: Eleni Aplakidou, Nikolaos Vergoulidis, Maria Chasapi, Nefeli K. Venetsianou, Maria Kokoli, Eleni Panagiotopoulou, Ioannis Iliopoulos, Evangelos Karatzas, Evangelos Pafilis, Ilias Georgakopoulos-Soares, Nikos C. Kyrpides, Georgios A. Pavlopoulos, Fotis A. Baltoumas
Pubblicato in: Computational and Structural Biotechnology Journal, Numero 23, 2025, Pagina/e 2011-2033, ISSN 2001-0370
Editore: Elsevier BV
DOI: 10.1016/j.csbj.2024.04.060

Robust dark-field signal extraction for modulation-based x-ray tensor tomography

Autori: Ginevra Lautizi, Vittorio Di Trapani, Alain Studer, Marie-Christine Zdora, Fabio De Marco, Jisoo Kim, Federica Marone, Marco Stampanoni, Pierre Thibault
Pubblicato in: Applied Physics Letters, Numero 125, 2025, ISSN 0003-6951
Editore: American Institute of Physics
DOI: 10.1063/5.0244120

Can AlphaFold’s breakthrough in protein structure help decode the fundamental principles of adaptive cellular immunity?

Autori: Benjamin McMaster, Christopher Thorpe, Graham Ogg, Charlotte M. Deane & Hashem Koohy
Pubblicato in: Nature Methods, 2024, ISSN 1548-7091
Editore: Nature Publishing Group
DOI: 10.1038/s41592-024-02240-7

Image scanning microscopy reconstruction by autocorrelation inversion

Autori: Daniele Ancora, Alessandro Zunino, Giuseppe Vicidomini, Alvaro H Crevenna
Pubblicato in: Journal of Physics: Photonics, Numero 6, 2024, Pagina/e 045003, ISSN 2515-7647
Editore: IOP Publishing
DOI: 10.1088/2515-7647/ad68dd

Other (9)

Conference (poster and talk): eSPC, an online data-analysis platform for molecular biophysics

Autori: Osvaldo Burastero, Stephan Niebling, Angelica Struve, Maria Garcia Alai
Pubblicato in: 1st MOSBRI Scientific Conference, 2022
Editore: MOlecular-Scale Biophysics Research Infrastructure (MOSBRI)

Elucidating the mechanisms of action and evolutionary history of phage anti-defence proteins

Autori: Khalimat Murtazalieva, Evangelos Karatzas, Federico Corona, Jiawei Wang, Athanasios Typas, Robert D. Finn
Pubblicato in: 2025
Editore: Cold Spring Harbor Laboratory
DOI: 10.1101/2025.06.06.658234

metagRoot: A comprehensive database of protein families associated with plant root microbiomes

Autori: Maria N. Chasapi, Iro N. Chasapi, Eleni Aplakidou, Fotis A. Baltoumas, Evangelos Karatzas, Ioannis Iliopoulos, Dimitrios J. Stravopodis, Ioannis Z. Emiris, Aydin Buluç, Ilias Georgakopoulos-Soares, Nikos C. Kyrpides, Georgios A. Pavlopoulos
Pubblicato in: 2025
Editore: Cold Spring Harbor Laboratory
DOI: 10.1101/2025.05.22.653656

Conference (talk):Shining a Light on Dynamic Data: From generation to interpretation

Autori: Osvaldo Burastero
Pubblicato in: 2nd MOSBRI Scientific Conference, 2023
Editore: MOlecular-Scale Biophysics Research Infrastructure (MOSBRI)

Conference poster:eSPC, an online data-analysis platform for molecular biophysics

Autori: Osvaldo Burastero, Angelica Struve, Stephan Niebling, Maria Garcia Alai
Pubblicato in: Instruct Biennial Structural Biology Conference, 2022
Editore: Instruct-ERIC

Early regional lymph node activation drives influenza vaccine responses in an ancestrally diverse cohort

Autori: Jacqueline HY Siu, Sofia Coelho, Aime Palomeras, Sandra Belij-Rammerstorfer, Chloe H Lee, Tamara Strobel, Christopher Thorpe, Charandeep Kaur, Tom Cole, Nico Remmert, Jamie Fowler, Sam Pledger, Kyla B Dooley, Daniel Opoka, Tamas Szommer, Samantha Vanderslott, Pontiano Kaleebu, Anita Milicic, Donald B Palmer, Teresa Lambe, Brian D Marsden, Hashem Koohey, Mark Coles, Calliope A Dendrou, Katrina M Po
Pubblicato in: 2024
Editore: Cold Spring Harbor Laboratory
DOI: 10.1101/2024.10.28.620725

Biocuration Toolbox

Autori: Matt Jeffryes
Pubblicato in: 2023
Editore: Matt Jeffreys

Image Scanning Microscopy Reconstruction by Autocorrelation Inversion

Autori: Daniele Ancora, Alessandro Zunino, Giuseppe Vicidomini, Alvaro H. Crevenna
Pubblicato in: 2024
Editore: ArXiv.org
DOI: 10.48550/arxiv.2404.08946

High-quality peptide evidence for annotating non-canonical open reading frames as human proteins

Autori: Eric W Deutsch, Leron W Kok, Jonathan M Mudge, Jorge Ruiz-Orera, Ivo Fierro-Monti, Zhi Sun, Jennifer G Abelin, M Mar Alba, Julie L Aspden, Ariel A Bazzini, Elspeth A Bruford, Marie A Brunet, Lorenzo Calviello, Steven A Carr, Anne-Ruxandra Carvunis, Sonia Chothani, Jim Clauwaert, Kellie Dean, Pouya Faridi, Adam Frankish, Norbert Hubner, Nicholas T Ingolia, Michele Magrane, Maria Jesus Martin, Thoma
Pubblicato in: 2025
Editore: Cold Spring Harbor Laboratory
DOI: 10.1101/2024.09.09.612016

Book chapters (2)

Biophysical Characterization of Membrane Proteins

Autori: Niebling S, Burastero O, García-Alai M.
Pubblicato in: Methods in Molecular Biology book series (MIMB,volume 2652), 2023, ISSN 978-1-0716-3146-1978-1-0716-3147-8
Editore: Humana, New York, NY (Springer)
DOI: 10.1007/978-1-0716-3147-8_12

“Recombineering: A Modern Approach to Genetic Engineering

Autori: Sawitzke, J.A., Barenghi, A., Thomason, L., Costantino, N. and Court, D.
Pubblicato in: Brenner’s Encyclopaedia of Genetics 3rd Edition, 2023, ISBN 9780123749840
Editore: Elsevier