CAVALLERI, EMANUELE
CAVALLERI, EMANUELE
Dipartimento di Informatica Giovanni Degli Antoni
RNAcentral in 2026: genes and literature integration
2026 A. Green, C.E. Ribas, I. Jandalala, P. Muston, C. O'Cathail, G. Cochrane, C. Ernst, L. Zhao, P. Madrigal, H. Attrill, S. Marygold, D. Lancet, N. Dobzinski, P.P. Chan, T.M. Lowe, E.A. Bruford, R.L. Seal, H. Hermjakob, K. Panneerselvam, R.D. Finn, T.A. Gurbich, S. Griffiths-Jones, B. Fromm, K.J. Peterson, D. Sordyl, J.M. Bujnicki, S. Velankar, S.D. Appasamy, S. Ganguly, P. Zhang, S. He, K.M. Rutherford, V. Wood, R.C. Lovering, E. Picardi, N. Ontiveros, L. Huang, Z. Miao, A.S. Petrov, H. Mccann, E. Cavalleri, M. Mesiti, E. Rivas, M. Szikszai, M. Magnus, J. Gerken, M. Chuvochina, D. Bergeron, M. Scott, K.P. Williams, R.R. Gutell, C.X. Chan, M. Quinton-Tulloch, S. Diamantakis, A.I. Petrov, A. Bateman, B.A. Sweeney
RNA-KG v2.0: an RNA-centered Knowledge Graph with Properties
2026 E. Cavalleri, P. Perlasca, M. Mesiti
A Schema-Driven Prompt Engineering Approach for Data-Centric LLM Tasks
2026 E. Cavalleri, M. Mesiti
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
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
Prompt Engineering Approaches for Working with Biomedical Knowledge Graphs through LLMs
2025 M. Mesiti, E. Cavalleri, M. Castagna, P. Perlasca, D. Shlyk
A Semantic Schema-Based Catalog for Identifying Joinable Columns via LLMs
2025 E. Cavalleri, M. Castagna, M. Mesiti
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
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
REAL: A Retrieval-Augmented Entity Linking Approach for Biomedical Concept Recognition
2024 D. Shlyk, T. Groza, S. Montanelli, E. Cavalleri, M. Mesiti
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
Construction and Enhancement of an RNA-Based Knowledge Graph for Discovering New RNA Drugs
2024 E. Cavalleri, M. Mesiti
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
On the extraction of meaningful RNA interactions from Scientific Publications through LLMs and SPIRES
2024 E. Cavalleri, M. Mesiti
An open source knowledge graph ecosystem for the life sciences
2024 T.J. Callahan, I.J. Tripodi, A.L. Stefanski, L. Cappelletti, S.B. Taneja, J.M. Wyrwa, E. Casiraghi, N.A. Matentzoglu, J. Reese, J.C. Silverstein, C.T. Hoyt, R.D. Boyce, S.A. Malec, D.R. Unni, M.P. Joachimiak, P.N. Robinson, C.J. Mungall, E. Cavalleri, T. Fontana, G. Valentini, M. Mesiti, L.A. Gillenwater, B. Santangelo, N.A. Vasilevsky, R. Hoehndorf, T.D. Bennett, P.B. Ryan, G. Hripcsak, M.G. Kahn, M. Bada, W.A. Baumgartner, L.E. Hunter
RNA Knowledge Graph Analysis via Embedding Methods
2024 F. Torgano, E. Cavalleri, J. Gliozzo, F. Stacchietti, E. Saitto, M. Mesiti, E. Casiraghi, G. Valentini
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
RNA-KG: An ontology-based knowledge graph for representing interactions involving RNA molecules
2023 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
An Open-Source Knowledge Graph Ecosystem for the Life Sciences
2023 T.J. Callahan, I.J. Tripodi, A.L. Stefanski, L. Cappelletti, S.B. Taneja, J.M. Wyrwa, E. Casiraghi, N.A. Matentzoglu, J. Reese, J.C. Silverstein, C. Tapley Hoyt, R.D. Boyce, S.A. Malec, D.R. Unni, M.P. Joachimiak, P.N. Robinson, C.J. Mungall, E. Cavalleri, T. Fontana, G. Valentini, M. Mesiti, L.A. Gillenwater, B. Santangelo, N.A. Vasilevsky, R. Hoehndorf, T.D. Bennett, P.B. Ryan, G. Hripcsak, M.G. Kahn, M. Bada, W.A. Baumgartner Jr, L.E. Hunter