CASIRAGHI, ELENA
CASIRAGHI, ELENA
Dipartimento di Informatica Giovanni Degli Antoni
Modular Deep Neural Networks with Residual Connections for Predicting the Pathogenicity of Genetic Variants in Non Coding Genomic Regions
2026 F. Stacchietti, M. Nicolini, L. Chimirri, P.N. Robinson, E. Casiraghi, G. Valentini
A Transformer-Based Model to Predict Micro RNA Interactions
2025 M. Nicolini, F. Stacchietti, C. Cano, E. Casiraghi, G. Valentini
Intrinsic-dimension analysis for guiding dimensionality reduction and data fusion in multi-omics data processing
2025 J. Gliozzo, M. Soto-Gomez, V. Guarino, A. Bonometti, A. Cabri, E. Cavalleri, J. Reese, P.N. Robinson, M. Mesiti, G. Valentini, E. Casiraghi
Replacing non-biomedical concepts improves embedding of biomedical concepts
2025 E. Niyonkuru, M.S. Gomez, E. Casarighi, S. Antogiovanni, H. Blau, J.T. Reese, G. Valentini, P.N. Robinson
RNA knowledge-graph analysis through homogeneous embedding methods
2025 F. Torgano, M. Soto Gomez, M. Zignani, J. Gliozzo, E. Cavalleri, M. Mesiti, E. Casiraghi, G. Valentini
miss-SNF: a multimodal patient similarity network integration approach to handle completely missing data sources
2025 J. Gliozzo, M.A. Soto Gomez, A. Bonometti, A. Patak, E. Casiraghi, G. Valentini
Fine-tuning of conditional Transformers improves in silico enzyme prediction and generation
2025 M. Nicolini, E. Saitto, R.E. Jimenez Franco, E. Cavalleri, A.J. Galeano Alfonso, D. Malchiodi, A. Paccanaro, P.N. Robinson, E. Casiraghi, G. Valentini
CSGL: Chemical Synthesis Graph Learning for Molecule Representation
2025 A. Li, E. Casiraghi, J. Rousu
Leveraging generative AI to assist biocuration of medical actions for rare disease
2025 E. Niyonkuru, J.H. Caufield, L.C. Carmody, M.A. Gargano, S. Toro, P.L. Whetzel, H. Blau, M. Soto Gomez, E. Casiraghi, L. Chimirri, J.T. Reese, G. Valentini, M.A. Haendel, C.J. Mungall, P.N. Robinson
Biasing second-order random walk sampling for heterogeneous graph embedding
2025 M. Soto-Gomez, C. Cano, J. Reese, P.N. Robinson, G. Valentini, E. Casiraghi
SPIREX: Improving LLM-based relation extraction from RNA-focused scientific literature using graph machine learning
2024 E. Cavalleri, M. Soto Gomez, A. Pashaeibarough, D. Malchiodi, J.H. Caufield, J.T. Reese, C. Mungall, P.N. Robinson, E. Casiraghi, G. Valentini, M. Mesiti
Fine-tuning of Conditional Transformers Improves the Generalization of Functionally Characterized Proteins
2024 M. Nicolini, D. Malchiodi, A. Cabri, E. Cavalleri, M. Mesiti, A. Paccanaro, N. Robinson Peter, J. Reese, E. Casiraghi, G. Valentini
Chemical Reaction Enhanced Graph Learning for Molecule Representation
2024 A. Li, E. Casiraghi, J. Rousu
Node-degree aware edge sampling mitigates inflated classification performance in biomedical random walk-based graph representation learning
2024 L. Cappelletti, L. Rekerle, T. Fontana, P. Hansen, E. Casiraghi, V. Ravanmehr, C.J. Mungall, J. Yang, L. Spranger, G. Karlebach, J.H. Caufield, L. Carmody, B. Coleman, T. Oprea, J. Reese, G. Valentini, P.N. Robinson
The Use of Artificial Intelligence in Head and Neck Cancers: A Multidisciplinary Survey
2024 C. Giannitto, G. Carnicelli, S. Lusi, A. Ammirabile, E. Casiraghi, A. De Virgilio, A. Esposito, D. Farina, F. Ferreli, C. Franzese, G.M. Frigerio, A. Lo Casto, L. Malvezzi, L. Lorini, A. Othman, L. Preda, M. Scorsetti, P. Bossi, G. Mercante, G. Spriano, L. Balzarini, M. Francone
Unbiased clustering and molecular characterisation of novel metabolic phenotypes in a heart failure cohort
2024 E. Esenkova, T. Koeck, G. Valentini, P. Wild, E. Casiraghi, E. Araldi
Initial achievements in relation extraction from RNA-focused scientific papers
2024 E. Cavalleri, M. Soto-Gomez, A. Pashaeibarough, D. Malchiodi, H. Caufield, J. Reese, C.J. Mungall, P.N. Robinson, E. Casiraghi, G. Valentini, M. Mesiti
An ontology-based knowledge graph for representing interactions involving RNA molecules
2024 E. Cavalleri, A. Cabri, M. Soto-Gomez, S. Bonfitto, P. Perlasca, J. Gliozzo, T.J. Callahan, J. Reese, P.N. Robinson, E. Casiraghi, G. Valentini, M. Mesiti
Fine-Tuning of Conditional Transformers Improves the Generation of Functionally Characterized Proteins
2024 M. Nicolini, D. Malchiodi, A. Cabri, E. Cavalleri, M. Mesiti, A. Paccanaro, P.N. Robinson, J. Reese, E. Casiraghi, G. Valentini
RNA Knowledge Graph Analysis via Embedding Methods
2024 F. Torgano, E. Cavalleri, J. Gliozzo, F. Stacchietti, E. Saitto, M. Mesiti, E. Casiraghi, G. Valentini