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ORCIDAndrea Pagnani
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2020 – today
- 2025
[j15]Francesco Manigrasso
, Rosario Milazzo, Alessandro Sebastian Russo, Fabrizio Lamberti, Fredrik Strand, Andrea Pagnani, Lia Morra:
Mammography classification with multi-view deep learning techniques: Investigating graph and transformer-based architectures. Medical Image Anal. 99: 103320 (2025)- 2024
- [j14]Matteo De Leonardis, Jorge Fernandez-de-Cossío-Diaz, Guido Uguzzoni, Andrea Pagnani:
Unsupervised modeling of mutational landscapes of adeno-associated viruses viability. BMC Bioinform. 25(1): 229 (2024) - [j13]Luca Sesta, Andrea Pagnani, Jorge Fernandez-de-Cossío-Diaz, Guido Uguzzoni:
Inference of annealed protein fitness landscapes with AnnealDCA. PLoS Comput. Biol. 20(2) (2024) - [j12]Jorge Fernandez-de-Cossío-Diaz, Guido Uguzzoni, Kévin Ricard, Francesca Anselmi, Clément Nizak, Andrea Pagnani, Olivier Rivoire:
Inference and design of antibody specificity: From experiments to models and back. PLoS Comput. Biol. 20(10): 1012522 (2024) - 2023
- [j11]Anna Paola Muntoni, Andrea Pagnani:
DCAlign v1.0: aligning biological sequences using co-evolution models and informed priors. Bioinform. 39(9) (2023) - 2022
- [j10]Bahareh Behkamal, Mahmoud Naghibzadeh, Andrea Pagnani, Mohammad Reza Saberi, Kamal Al Nasr:
LPTD: a novel linear programming-based topology determination method for cryo-EM maps. Bioinform. 38(10): 2734-2741 (2022) - 2021
- [j9]Anna Paola Muntoni, Andrea Pagnani, Martin Weigt, Francesco Zamponi:
adabmDCA: adaptive Boltzmann machine learning for biological sequences. BMC Bioinform. 22(3): 528 (2021) - 2020
- [p1]Thomas Gueudré, Carlo Baldassi, Andrea Pagnani, Martin Weigt:
Predicting Interacting Protein Pairs by Coevolutionary Paralog Matching. Protein-Protein Interaction Networks 2020: 57-65 - [i5]Alfredo Braunstein, Thomas Gueudré, Andrea Pagnani, Mirko Pieropan:
Expectation propagation for the diluted Bayesian classifier. CoRR abs/2009.09545 (2020)
2010 – 2019
- 2019
- [j8]Elena Facco, Andrea Pagnani, Elena Tea Russo, Alessandro Laio:
The intrinsic dimension of protein sequence evolution. PLoS Comput. Biol. 15(4) (2019) - [i4]Alfredo Braunstein, Anna Paola Muntoni, Andrea Pagnani, Mirko Pieropan:
Compressed sensing reconstruction using Expectation Propagation. CoRR abs/1904.05777 (2019) - 2016
- [j7]Lorenzo Asti, Guido Uguzzoni, Paolo Marcatili, Andrea Pagnani:
Maximum-Entropy Models of Sequenced Immune Repertoires Predict Antigen-Antibody Affinity. PLoS Comput. Biol. 12(4) (2016) - 2014
- [j6]Christoph Feinauer, Marcin J. Skwark, Andrea Pagnani, Erik Aurell:
Improving Contact Prediction along Three Dimensions. PLoS Comput. Biol. 10(10) (2014) - [c4]Anthony Gitter, Alfredo Braunstein, Andrea Pagnani, Carlo Baldassi, Christian Borgs, Jennifer T. Chayes, Riccardo Zecchina, Ernest Fraenkel:
Sharing Information to Reconstruct Patient-Specific Pathways in Heterogeneous Diseases. Pacific Symposium on Biocomputing 2014: 39-50 - 2013
- [j5]Nurcan Tuncbag, Alfredo Braunstein, Andrea Pagnani, Shao-Shan Carol Huang, Jennifer T. Chayes, Christian Borgs, Riccardo Zecchina, Ernest Fraenkel:
Simultaneous Reconstruction of Multiple Signaling Pathways via the Prize-Collecting Steiner Forest Problem. J. Comput. Biol. 20(2): 124-136 (2013) - [j4]Evan J. Molinelli, Anil Korkut, Weiqing Wang, Martin L. Miller, Nicholas Paul Gauthier, Xiaohong Jing, Poorvi Kaushik, Qin He, Gordon B. Mills, David B. Solit, Christine A. Pratilas, Martin Weigt, Alfredo Braunstein, Andrea Pagnani, Riccardo Zecchina, Chris Sander:
Perturbation Biology: Inferring Signaling Networks in Cellular Systems. PLoS Comput. Biol. 9(12) (2013) - [c3]Andrea Pagnani:
Exploiting Co-evolution across Protein Families for Predicting Native Contacts and Protein-Protein Interaction Surfaces. CiE 2013: 329 - 2012
- [c2]Nurcan Tuncbag, Alfredo Braunstein, Andrea Pagnani, Shao-Shan Carol Huang, Jennifer T. Chayes, Christian Borgs, Riccardo Zecchina, Ernest Fraenkel:
Simultaneous Reconstruction of Multiple Signaling Pathways via the Prize-Collecting Steiner Forest Problem. RECOMB 2012: 287-301 - 2011
- [i3]Debora S. Marks, Lucy J. Colwell, Robert P. Sheridan, Thomas A. Hopf, Andrea Pagnani, Riccardo Zecchina, Chris Sander:
3D Protein Structure Predicted from Sequence. CoRR abs/1110.5091 (2011) - 2010
- [j3]Marc Bailly-Bechet, Alfredo Braunstein, Andrea Pagnani, Martin Weigt, Riccardo Zecchina:
Inference of sparse combinatorial-control networks from gene-expression data: a message passing approach. BMC Bioinform. 11: 355 (2010)
2000 – 2009
- 2009
- [c1]Alejandro Lage-Castellanos, Andrea Pagnani, Martin Weigt:
The importance of dilution in the inference of biological networks. Allerton 2009: 531-538 - 2008
- [j2]Alfredo Braunstein, Roberto Mulet, Andrea Pagnani:
Estimating the size of the solution space of metabolic networks. BMC Bioinform. 9 (2008) - 2005
- [j1]Michele Leone, Andrea Pagnani:
Predicting protein functions with message passing algorithms. Bioinform. 21(2): 239-247 (2005) - 2004
- [i2]Florent Krzakala, Andrea Pagnani, Martin Weigt:
Threshold values, stability analysis and high-q asymptotics for the coloring problem on random graphs. CoRR cond-mat/0403725 (2004) - 2002
- [i1]Roberto Mulet, Andrea Pagnani, Martin Weigt, Riccardo Zecchina:
Coloring random graphs. CoRR cond-mat/0208460 (2002)
Coauthor Index
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