VALENTINI, GIORGIO
VALENTINI, GIORGIO
Dipartimento di Informatica Giovanni Degli Antoni
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
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
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
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
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
Association of post-COVID phenotypic manifestations with new-onset psychiatric disease
2024 B. Coleman, E. Casiraghi, T.J. Callahan, H. Blau, L.E. Chan, B. Laraway, K.B. Clark, Y. Re’Em, K.R. Gersing, K.J. Wilkins, N.L. Harris, G. Valentini, M.A. Haendel, J.T. Reese, P.N. Robinson
RNA Knowledge Graph Analysis via Embedding Methods
2024 F. Torgano, E. Cavalleri, J. Gliozzo, F. Stacchietti, E. Saitto, M. Mesiti, E. Casiraghi, G. Valentini
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
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
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
Towards the Construction of an RNA-based Knowledge Graph
2023 E. Cavalleri, S. Bonfitto, A. Cabri, J. Gliozzo, P. Perlasca, M. Soto-Gomez, G. Trucco, E. Casiraghi, G. Valentini, M. Mesiti
The promises of large language models for protein design and modeling
2023 G. Valentini, D. Malchiodi, J. Gliozzo, M. Mesiti, M. Soto Gomez, A. Cabri, J. Reese, E. Casiraghi, P.N. Robinson
A Meta-Graph for the Construction of an RNA-Centered Knowledge Graph
2023 E. Cavalleri, S. Bonfitto, A. Cabri, J. Gliozzo, P. Perlasca, M. Soto-Gomez, G. Trucco, 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
Generalisable long COVID subtypes: findings from the NIH N3C and RECOVER programmes
2023 J.T. Reese, H. Blau, E. Casiraghi, T. Bergquist, J.J. Loomba, T.J. Callahan, B. Laraway, C. Antonescu, B. Coleman, M. Gargano, K.J. Wilkins, L. Cappelletti, T. Fontana, N. Ammar, B. Antony, T.M. Murali, J.H. Caufield, G. Karlebach, J.A. Mcmurry, A. Williams, R. Moffitt, J. Banerjee, A.E. Solomonides, H. Davis, K. Kostka, G. Valentini, D. Sahner, C.G. Chute, C. Madlock-Brown, M.A. Haendel, P.N. Robinson, H. Spratt, S. Visweswaran, J.E. Flack, Y.J. Yoo, D. Gabriel, G.C. Alexander, H.B. Mehta, F. Liu, R.T. Miller, R. Wong, E.L. Hill, L.E. Thorpe, J. Divers
A method for comparing multiple imputation techniques: a case study on the U.S. National COVID Cohort Collaborative
2023 E. Casiraghi, R. Wong, M. Hall, B. Coleman, M. Notaro, M.D. Evans, J.S. Tronieri, H. Blau, B. Laraway, T.J. Callahan, L.E. Chan, C.T. Bramante, J.B. Buse, R.A. Moffitt, T. Stürmer, S.G. Johnson, Y. Raymond Shao, J. Reese, P.N. Robinson, A. Paccanaro, G. Valentini, J.D. Huling, K.J. Wilkins
Degree-Normalization Improves Random-Walk-Based Embedding Accuracy in PPI Graphs
2023 L. Cappelletti, S. Taverni, T. Fontana, M.P. Joachimiak, J. Reese, P. Robinson, E. Casiraghi, G. Valentini
Predictive models of long COVID
2023 B. Antony, H. Blau, E. Casiraghi, J.J. Loomba, T.J. Callahan, B.J. Laraway, K.J. Wilkins, C.C. Antonescu, G. Valentini, A.E. Williams, P.N. Robinson, J.T. Reese, T.M. Murali
An expectation-maximization framework for comprehensive prediction of isoform-specific functions
2023 G. Karlebach, L. Carmody, J.C. Sundaramurthi, E. Casiraghi, P. Hansen, J. Reese, C.J. Mungall, G. Valentini, P.N. Robinson
Integration and Visual Analysis of Biomolecular Networks Through UNIPred-Web
2023 P. Perlasca, M. Frasca, C.T. Ba, J. Gliozzo, M. Notaro, M. Pennacchioni, G. Valentini, M. Mesiti