Statistical Physics and Interdisciplinary Applications
Specific mission
Statistical physics of disordered systems, computational neuroscience and computational biology, inverse dynamical problems, distributed algorithms for optimisation, constraint satisfaction problems and statistical inference, information theory, machine learning, protein folding, dynamics of cellular systems, modelling post-transcriptional regulation, optimization and control of dynamical processes on networks, non-equilibrium and fixation properties in structured populations, graphical games and socio-economic interactions, Statistical physics of cell signaling and cell membrane dynamics, Statistical methods for inference of structural properties of protein from co-evolutionary data, reconstruction of signaling pathways from multi-drugs perturbations. We refer to the web pages of the single researchers for details on the specific objectives.
Main research topics
- Computational biology and computational neuroscience
- Variational approaches in statistical mechanics
- Spin glass theory
- Statistical inference, optimization and distributed algorithms
- Inverse Problems
- Protein folding: contact prediction and dynamics
- Out-of-equilibrium physics in graphical models and biological systems
- Game Theory in Networks
- Cell signaling
- Cell membrane dynamics
Main partnerships
- Italian Institute for Genomic Medicine: computational biology
- Microsoft Research New England: algorithms for computational biology
- Ecole Normale Supérieure: Statistical Physics in neuroscience
- MIT Bio-engineering lab: inference of signalling pathways
- Politecnico di Torino: Neural Engineering and Computation Lab
- University of Chicago: computational neuroscience
- Molecular Biology Center Turin: post-transcriptional regulation
- SISSA, Trieste: stochastic population dynamics, non-equilibrium physics
- BIFI Institute, Zaragoza: protein folding dynamics
- University of Cambridge: protein folding dynamics
- Université Pierre et Marie Curie, CNRS: Inference and co-evolution
- Bocconi University: socio-economic networks
- Università di Torino: cell metabolism
- Universidad Nacional Autónoma del Mexico: medical image inference and processing
- Candiolo Cancer Institute: cell signaling, cell membrane dynamics
- Landau Institute for Theoretical Physics, Chernogolovka, Russian Federation: cell membrane dynamics
Projects and publications
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Selected funded research projects
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STATISTICAL INFERENCE VIA BELIEF PROPAGATION FOR DYNAMICAL MODELS OF EPIDEMICS
BRAUNSTEIN ALFREDO
2015 - 2017 (Completed)
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STATISTICAL INFERENCE VIA BELIEF PROPAGATION FOR DYNAMICAL MODELS OF EPIDEMICS
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Selected recent publications
2021
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Optimality in Self-Organized Molecular Sorting
Article
Zamparo, M.; Valdembri, D.; Serini, G.; Kolokolov, I. V.; Lebedev, V. V.; Dall'Asta, L.; Gamba, A.
PHYSICAL REVIEW LETTERS
American Physical Society
Vol.126 pp.7 ISSN:0031-9007 DOI:10.1103/PhysRevLett.126.088101
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An analytic approximation of the feasible space of metabolic networks
Article
Braunstein, Alfredo; Muntoni, ANNA PAOLA; Pagnani, Andrea
NATURE COMMUNICATIONS
Nature Publishing Group
Vol.8 pp.9 ISSN:2041-1723 DOI:10.1038/ncomms14915
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Network dismantling
Article
Braunstein, Alfredo; Dall'Asta, Luca; Semerjian, Guilhem; Zdeborová, Lenka
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
National Academy of Sciences
Vol.113 pp.6 (pp.12368-12373) ISSN:0027-8424 DOI:10.1073/pnas.1605083113 -
Simultaneous identification of specifically interacting paralogs and interprotein contacts by direct coupling analysis
Article
Gueudre, Thomas; Baldassi, Carlo; Zamparo, Marco; Weigt, Martin; Pagnani, Andrea
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
National Academy of Sciences
Vol.113 pp.6 (pp.12186-12191) ISSN:0027-8424 DOI:10.1073/pnas.1607570113
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Three-dimensional chemotaxis-driven aggregation of tumor cells
Article
Puliafito, Alberto; De Simone, Alessandro; Seano, Giorgio; Gagliardi, Paolo Armando; Di Blasio, Laura; Chianale, Federica; Gamba, ANDREA ANTONIO; Primo, Luca; Celani, Antonio
SCIENTIFIC REPORTS
Nature
Vol.5 pp.12 ISSN:2045-2322 DOI:10.1038/srep15205
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Network Controllability Is Determined by the Density of Low In-Degree and Out-Degree Nodes
Article
Menichetti, Giulia; Dall'Asta, Luca; Bianconi, Ginestra
PHYSICAL REVIEW LETTERS
American Physical Society (APS)
Vol.113 pp.5 (pp.1-5) ISSN:0031-9007 DOI:10.1103/PhysRevLett.113.078701 -
Containing Epidemic Outbreaks by Message-Passing Techniques
Article
Altarelli, Fabrizio; Braunstein, Alfredo; Dall'Asta, Luca; Wakeling, J. R.; Zecchina, Riccardo
PHYSICAL REVIEW. X
American Physical Society (APS)
Vol.4 pp.21 ISSN:2160-3308 DOI:10.1103/PhysRevX.4.021024 -
Bayesian Inference of Epidemics on Networks via Belief Propagation
Article
Altarelli, Fabrizio; Braunstein, Alfredo; Dall'Asta, Luca; Alejandro Lage, Castellanos; Zecchina, Riccardo
PHYSICAL REVIEW LETTERS
APS American Physical Society
Vol.112 pp.5 ISSN:0031-9007 DOI:10.1103/PhysRevLett.112.118701 -
Fast and Accurate Multivariate Gaussian Modeling of Protein Families: Predicting Residue Contacts and Protein-Interaction Partners
Article
Baldassi, Carlo; Zamparo, Marco; Feinauer, Christoph; Procaccini, A.; Zecchina, Riccardo; Weigt, R.; Pagnani, Andrea
PLOS ONE
PLOS
Vol.9 pp.12 ISSN:1932-6203 DOI:10.1371/journal.pone.0092721
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Genome-wide analysis identifies a functional association of Tet1 and Polycomb repressive complex 2 in mouse embryonic stem cells
Article
Francesco, Neri; Danny, Incarnato; Anna, Krepelova; Stefania, Rapelli; Pagnani, Andrea; Zecchina, Riccardo; Caterina, Parlato; Salvatore, Oliviero
GENOME BIOLOGY
BIOMED CENTRAL LTD
Vol.14 pp.13 ISSN:1474-760X DOI:10.1186/gb-2013-14-8-r91 -
Polarity, cell division, and out-of-equilibrium dynamics control the growth of epithelial structures
Article
B., Cerruti; A., Puliafito; A. M., Shewan; W., Yu; A. N., Combes; M. H., Little; F., Chianale; L., Primo; G., Serini; K. E., Mostov; A., Celani; Gamba, ANDREA ANTONIO
THE JOURNAL OF CELL BIOLOGY
The Rockefeller University Press
Vol.203 pp.14 (pp.359-372) ISSN:0021-9525 DOI:10.1083/jcb.201305044 -
Optimizing spread dynamics on graphs by message passing
Article
Altarelli, Fabrizio; Braunstein, Alfredo; Dall'Asta, Luca; Zecchina, Riccardo
JOURNAL OF STATISTICAL MECHANICS: THEORY AND EXPERIMENT
IOP Publishing Ltd and SISSA Medialab srl
Vol.2013 pp.25 ISSN:1742-5468 DOI:10.1088/1742-5468/2013/09/P09011 -
Modelling Competing Endogenous RNA Networks
Article
Bosia, C; Pagnani, Andrea; Zecchina, Riccardo; Bosia, Carla
PLOS ONE
PUBLIC LIBRARY SCIENCE, 1160 BATTERY STREET, STE 100, SAN FRANCISCO, CA 94111 USA
Vol.8 pp.13 ISSN:1932-6203 DOI:10.1371/journal.pone.0066609 -
Integrated transcriptional and competitive endogenous RNA networks are cross-regulated in permissive molecular environments
Article
Ala, U.; Karreth, F. A.; Bosia, C.; Pagnani, Andrea; Taulli, R.; Léopold, V.; Tay, Y.; Provero, P.; Zecchina, Riccardo; Pandolfi, P. P.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
United States National Academy of Sciences (United States)
Vol.110 pp.6 (pp.7154-7159) ISSN:0027-8424 DOI:10.1073/pnas.1222509110
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Optimality in Self-Organized Molecular Sorting