Author

Flaminia Pellegrini

The Francis Crick InstituteORCID 0000-0002-5874-5334Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Molecular Biology· 2 Biochemistry· 1 Neuroscience· 1

Signature Assays, Organisms & Methods

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Assay:bulk RNA-seq· 3 Research Focus:differential expression· 3 Organism:human· 3 Approach:experimental assay· 2 Research Focus:gene regulatory network inference· 2 Research Focus:protein structure prediction· 2 Approach:statistical model· 2 Research Focus:cell type annotation· 1

Frequent Co-Authors

Pietro FrattaiD· 3 shared Anna‐Leigh BrowniD· 2 shared Dario DattiloiD· 2 shared Francesca MattediiD· 2 shared Jose Norberto S. VargasiD· 2 shared Matteo ZanovelloiD· 2 shared Matthew J. KeussiD· 2 shared Puja R. MehtaiD· 2 shared

Activity by Year

2025-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 29 mutual co-author links

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3 shared papersMolecular Biology

Pietro FrattaORCID

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4 papers

Recent·Most cited

Monomeric TDP-43 binds GU-rich RNA via its NTD but only its oligomers block cryptic exon inclusion

Aurélie Zbinden, Izabela Smok, Flaminia Pellegrini, Alexandra Oertel, Antoine Cléry, Vera I. Wiersma, Wan-Ping Huang, Beatrice Gatta, Weijia Zhong, Yaozong Li, Michael Götze, Martina Peter, Niklas Bargenda, Marián Hruška-Plocháň, Amedeo Caflisch, , Magdalini Polymenidou

This study shows that the NTD of TDP-43 binds UG-rich RNA on monomers, while oligomerization is essential for repressing cryptic exons.

bioRxiv · Oct 5, 2026 · PreprintMolecular Biology

TDP-43 dysfunction induces cryptic circular RNAs in ALS/FTD

Dario Dattilo, Flaminia Pellegrini, Simone Barattucci, Anna‐Leigh Brown, Jose Norberto S. Vargas, Ariana P. Gatt, Ryan D. Morrie, Georgiana Miller, Iris Bachmutsky, Zachary T. McEachin, Mingee Chung, Matthew J. Keuss, Eugeni M. Ryadnov, Matteo Zanovello, Puja R. Mehta, , Pietro Fratta

This study identifies TDP-43 dysfunction as a cause of cryptic circular RNA formation in ALS/FTD, showing their association with disease-relevant protein loss and potential as biomarkers.

bioRxiv · Sep 20, 2026 · PreprintNeuroscience

Sensitivity to TDP-43 loss and degradation resistance determine cryptic exon biomarker potential

Anna‐Leigh Brown, Matteo Zanovello, Alla Mikheenko, Dario Dattilo, Flaminia Pellegrini, Sam Bryce-Smith, Francesca Mattedi, Puja R. Mehta, Jose Norberto S. Vargas, Jack Humphrey, Matthew J. Keuss, Pietro Fratta

The paper identifies cryptic splicing events (CEs) sensitive to TDP-43 loss and develops a composite score to detect TDP-43 pathology across tissues.

bioRxiv · Nov 23, 2025 · PreprintMolecular Biology

Decoding RNA-RNA Interactions: The Role of Low-Complexity Repeats and a Deep Learning Framework for Sequence-Based Prediction

Adriano Setti, Giorgio Bini, Flaminia Pellegrini, Valentino Maiorca, Gabriele Proietti, Dimitrios Miltiadis Vrachnos, Angelo D’Angelo, Alexandros Armaos, Julie Martone, Michele M. Monti, Giancarlo Ruocco, Emanuele Rodolà, Irene Bozzoni, Alessio Colantoni, Gian Gaetano Tartaglia

This paper identifies low-complexity repeats as key drivers of RNA-RNA interactions and introduces RIME, a deep learning model that outperforms traditional methods in predicting these interactions.

bioRxiv · Feb 16, 2025 · PreprintBiochemistry