CASIRAGHI, ELENA
CASIRAGHI, ELENA
Dipartimento di Informatica Giovanni Degli Antoni
Revisiting Minamata disease through computational phenotypic similarity analysis
2026 E. Marchi, P. Boldi, E. Casiraghi, S. Zapperi, C.A.M. La Porta
Computational understanding of non-coding RNA pairwise interactions
2026 M. Nicolini, F. Stacchietti, E. Casiraghi, G. Valentini
MiRInter-Trans: a Transformer-Based Framework for microRNA Interaction Prediction
2026 M. Nicolini, F. Stacchietti, F.J. Molina, C. Cano, J. Alcala-Fdez, A. Paccanaro, E. Casiraghi, G. Valentini
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
Systematic benchmarking demonstrates large language models have not reached the diagnostic accuracy of traditional rare-disease decision support tools
2026 J.T. Reese, L. Chimirri, Y. Bridges, D. Danis, J.H. Caufield, M.A. Gargano, C. Kroll, A. Schmeder, F. Liu, K. Wissink, J.A. Mcmurry, A.S.L. Graefe, E. Niyonkuru, D.R. Korn, E. Casiraghi, G. Valentini, J.O.B. Jacobsen, M. Haendel, D. Smedley, C.J. Mungall, P.N. Robinson
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
A cross-attentive multi-task graph learning framework for chemical reaction modeling
2025 M. Astero, A. Li, E. Casiraghi, J. Rousu
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
Hybrid Quantum-Classical Walks for Graph Representation Learning in Community Detection
2025 A. Marín, M. Soto-Gomez, G. Valentini, E. Casiraghi, C. Cano, D. Manzano
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
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
A Transformer-Based Model to Predict Micro RNA Interactions
2025 M. Nicolini, F. Stacchietti, C. Cano, E. Casiraghi, G. Valentini
CSGL: Chemical Synthesis Graph Learning for Molecule Representation
2025 A. Li, E. Casiraghi, J. Rousu
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
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
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
Chemical Reaction Enhanced Graph Learning for Molecule Representation
2024 A. Li, E. Casiraghi, J. Rousu
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
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