Career Accelerator for Research Infrastructure Scientists

Deliverables

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

Publications

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

Author(s): Ivo Fierro-Monti, Klemens Fröhlich, Christian Schori, Alexander Schmidt
Published in: Proteomes, Issue 12, 2024, Page(s) 33, ISSN 2227-7382
Publisher: MDPI AG
DOI: 10.3390/proteomes12040033

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

Author(s): Thomas Weber, Marco Raffaele Cosenza, Jan Korbel
Published in: Bioinformatics, Issue 39, 2023, ISSN 1367-4811
Publisher: 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

Author(s): Yehudi Bloch, Vinicius J S Osterne, Savvas N Savvides, Els J M Van Damme
Published in: Glycobiology, Issue 34, 2024, ISSN 1460-2423
Publisher: Oxford University Press (OUP)
DOI: 10.1093/glycob/cwae087

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

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

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

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

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

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

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

Author(s): Benjamin McMaster, Christopher J. Thorpe, Jamie Rossjohn, Charlotte M. Deane, Hashem Koohy
Published in: Frontiers in Immunology, Issue 15, 2024, ISSN 1664-3224
Publisher: Frontiers Media SA
DOI: 10.3389/fimmu.2024.1491656

RBPs: an RNA editor’s choice

Author(s): Ivo Fierro-Monti
Published in: Frontiers in Molecular Biosciences, Issue 11, 2024, ISSN 2296-889X
Publisher: Frontiers Media SA
DOI: 10.3389/fmolb.2024.1454241

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

Author(s): Osvaldo Burastero, George Draper-Barr, Bertrand Raynal Maelenn Chevreuil, Patrick Englandc and Maria Garcia Alai
Published in: Acta Crystallographica Section D: Structural Biology, 2023, ISSN 2059-7983
Publisher: IUCr/Wiley
DOI: 10.1107/s2059798323004862

Pervasive sublethal effects of agrochemicals on insects at environmentally relevant concentrations

Author(s): 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
Published in: Science, Issue 386, 2024, Page(s) 446-453, ISSN 0036-8075
Publisher: American Association for the Advancement of Science
DOI: 10.1126/science.ado0251

Identifying individuals using proteomics: are we there yet?

Author(s): Ivo Fierro-Monti, James C Wright, Jyoti S Choudhary, Juan Antonio Vizcaíno
Published in: Frontiers in molecular biosciences, 2022, ISSN 2296-889X
Publisher: Frontiers
DOI: 10.3389/fmolb.2022.1062031

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

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

Europe PMC in 2023.

Author(s): 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
Published in: Nucleic Acids Research, 2024, ISSN 0305-1048
Publisher: 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

Author(s): Samuel Davis, Jon-Richard Sommernes, Sebastian Hambura, Levin Riedel, Alejandro Gil, Aissam Ikmi, Florian Ströhl, Robert Prevedel
Published in: Biomedical Optics Express, Issue 15, 2024, Page(s) 6715, ISSN 2156-7085
Publisher: The Optical Society
DOI: 10.1364/boe.537262

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

Author(s): 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
Published in: Scientific Reports, Issue 15, 2025, ISSN 2045-2322
Publisher: Nature Publishing Group
DOI: 10.1038/s41598-025-85105-z

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

Author(s): 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
Published in: Journal of Medicinal Chemistry, Issue 65, 2024, Page(s) 9691-9705, ISSN 0022-2623
Publisher: American Chemical Society
DOI: 10.1021/acs.jmedchem.1c02012

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

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

LitSumm: large language models for literature summarization of noncoding RNAs

Author(s): Andrew Green, Carlos Eduardo Ribas, Nancy Ontiveros-Palacios, Sam Griffiths-Jones, Anton I Petrov, Alex Bateman, Blake Sweeney
Published in: Database, Issue 2025, 2025, ISSN 1758-0463
Publisher: Oxford University Press
DOI: 10.1093/database/baaf006

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

Author(s): 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
Published in: IUCrJ, Issue 11, 2024, Page(s) 780-791, ISSN 2052-2525
Publisher: International Union of Crystallography (IUCr)
DOI: 10.1107/s2052252524005785

Visualizing metagenomic and metatranscriptomic data: A comprehensive review

Author(s): 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
Published in: Computational and Structural Biotechnology Journal, Issue 23, 2025, Page(s) 2011-2033, ISSN 2001-0370
Publisher: Elsevier BV
DOI: 10.1016/j.csbj.2024.04.060

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

Author(s): Ginevra Lautizi, Vittorio Di Trapani, Alain Studer, Marie-Christine Zdora, Fabio De Marco, Jisoo Kim, Federica Marone, Marco Stampanoni, Pierre Thibault
Published in: Applied Physics Letters, Issue 125, 2025, ISSN 0003-6951
Publisher: 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?

Author(s): Benjamin McMaster, Christopher Thorpe, Graham Ogg, Charlotte M. Deane & Hashem Koohy
Published in: Nature Methods, 2024, ISSN 1548-7091
Publisher: Nature Publishing Group
DOI: 10.1038/s41592-024-02240-7

Image scanning microscopy reconstruction by autocorrelation inversion

Author(s): Daniele Ancora, Alessandro Zunino, Giuseppe Vicidomini, Alvaro H Crevenna
Published in: Journal of Physics: Photonics, Issue 6, 2024, Page(s) 045003, ISSN 2515-7647
Publisher: IOP Publishing
DOI: 10.1088/2515-7647/ad68dd

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

Author(s): Osvaldo Burastero, Stephan Niebling, Angelica Struve, Maria Garcia Alai
Published in: 1st MOSBRI Scientific Conference, 2022
Publisher: MOlecular-Scale Biophysics Research Infrastructure (MOSBRI)

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

Author(s): Khalimat Murtazalieva, Evangelos Karatzas, Federico Corona, Jiawei Wang, Athanasios Typas, Robert D. Finn
Published in: 2025
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2025.06.06.658234

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

Author(s): 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
Published in: 2025
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2025.05.22.653656

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

Author(s): Osvaldo Burastero
Published in: 2nd MOSBRI Scientific Conference, 2023
Publisher: MOlecular-Scale Biophysics Research Infrastructure (MOSBRI)

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

Author(s): Osvaldo Burastero, Angelica Struve, Stephan Niebling, Maria Garcia Alai
Published in: Instruct Biennial Structural Biology Conference, 2022
Publisher: Instruct-ERIC

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

Author(s): 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
Published in: 2024
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2024.10.28.620725

Biocuration Toolbox

Author(s): Matt Jeffryes
Published in: 2023
Publisher: Matt Jeffreys

Image Scanning Microscopy Reconstruction by Autocorrelation Inversion

Author(s): Daniele Ancora, Alessandro Zunino, Giuseppe Vicidomini, Alvaro H. Crevenna
Published in: 2024
Publisher: ArXiv.org
DOI: 10.48550/arxiv.2404.08946

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

Author(s): 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
Published in: 2025
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2024.09.09.612016

Biophysical Characterization of Membrane Proteins

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

“Recombineering: A Modern Approach to Genetic Engineering

Author(s): Sawitzke, J.A., Barenghi, A., Thomason, L., Costantino, N. and Court, D.
Published in: Brenner’s Encyclopaedia of Genetics 3rd Edition, 2023, ISBN 9780123749840
Publisher: Elsevier

Deliverables

Publications

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