NetSci 2024
We are excited to welcome the Network Science community in Québec City from June 17th to June 21st for the Network Science Society's flagship International School and Conference on Network Science. Visit https://netsci2024.com for full details or follow us on X, on Bluesky or on Mastodon.
New papers in Network Science
Stay up-to-date with the literature broadly related to complex networks by subscribing to this semi-automatically curated list of new publications in Network Science on X, on Bluesky, on Mastodon, or by joining our mailing list. Click here for more details.
Networks and Space
Whether physical or abstract, space shapes the topology of many real complex networks. The collection Networks and Space explores the synergy between geometry and graph theory and is now open for submission! Several APC waivers are available; get in touch for details.

News

2024.06.21 — I am honored to have been awarded the 2024 Erdős-Rényi Prize in Network Science by the Network Science Society. The slides from my lecture titled Simplicity meets complexity: Reproducing complex connectivity patterns with simple models can be found here.

2024.06.17 — New manuscript on the arXiv: Symmetry-driven embedding of networks in hyperbolic space.

2024.06.17 — We are proud to welcome the Network Science community in Québec for NetSci2024, this year's edition of the International School and Conference on Network Science. Vincent Thibeault, Zahra Yazdani, François Thibault, Simon Lizotte, Olivier Ribordy, Jérémi Lesage, Benjamin Claveau, Ilhem Bouderbala, Mariah Boudreau are presenting our latest results.

2024.06.05 — I am honored to have been awarded the Star Teacher prize (based on students evaluation) by the Faculty of Science and Engineering.

2024.05.25 — New paper in Nat. Commun.: Duality between predictability and reconstructability in complex systems.

2024.04.17 — New paper in npj Complex.: The path of complexity.

2024.04.12 — I am deeply honored to have been elected teacher of the year by the undergraduate Physics students.

2024.04.11 — I have been awarded a NSERC Discovery grant for the 2024–2030 period.

2024.02.14 — Our recent article The low-rank hypothesis of complex systems was featured on the cover of Nature Physics.

2024.01.18 — We were awarded the grant Soutien à l'organisation de congrès internationaux 2023 for the organization of NetSci 2024.

2024.01.12 — New paper in Netw. Neurosci.: NBS-SNI, an extension of the Network-based statistic: Abnormal functional connections between important structural actors.

2024.01.10 — New paper in Nat. Phys.: The low-rank hypothesis of complex systems.

2023.12.28 — New paper in PNAS: Nonlinear bias toward complex contagion in uncertain transmission settings.

2023.12.07 — New paper in BMC Global Public Health: The unintended consequences of inconsistent closure policies and mobility restrictions during epidemics.

2023.12.04 — New paper in Sci. Rep.: Hypergraph reconstruction from uncertain pairwise observations.

2023.11.22 — New paper in Nat. Commun.: The D-Mercator method for the multidimensional hyperbolic embedding of real networks.

2023.11.10 — New manuscript on the arXiv: Firing rate distributions in plastic networks of spiking neurons.

2023.11.01 — New manuscript on bioRxiv: A probabilistic methodology to reconstruct biodiversity from implicit interactions with indicator species along latitudinal co-occurrence networks.

2023.11.02 — New paper in Nat. Phys.: Geometric description of clustering in directed networks.

2023.10.27 — New paper in Sci. Total Environ.: The umbrella value of caribou management strategies for biodiversity conservation in boreal forests under global change.

2023.10.20 — New paper in Bull. Math. Biol.: Temporal and Probabilistic Comparisons of Epidemic Interventions.

2023.09.28 — The slides from my talk at the Vermont-KIAS workshop titled Rethinking interactions among the constituents of complex systems: The case for latent hyperbolic geometry are available here.

2023.07.25 — New paper in J. Phys. Complex.: Hierarchical team structure and multidimensional localization (or siloing) on networks.

2023.07.19 — New paper in Proc. R. Soc. A: Exact and rapid linear clustering of networks with dynamic programming.

2023.07.12 — François Thibault, Simon Lizotte, Jérémi Lesage, Alice Patania, Guillaume St-Onge and Laurent Hébert-Dufresne are presenting our latest results at the NetSci 2023 conference.

2023.07.10 — New manuscript on the arXiv: Modeling critical connectivity constraints in random and empirical networks.

2023.06.30 — The slides from my talk at the Institute for Biocomputation and Physics of Complex Systems titled Geometric description of clustering in directed networks are available here.

2023.06.01 — I have been promoted to Associate professor with tenure.

Research team

My Research Chair is part of the Dynamica Research Lab on Complex Systems that I lead alongside Patrick Desrosiers. I also co-supervise students or postdoctoral researchers affiliated with other research groups.

Currently under my (co-)supervision

Azénor Bideault
Postdoc

Gabriel Bergeron
PhD student

Simon Lizotte
PhD student

Charles Murphy
PhD student

Olivier Ribordy
PhD student

François Thibault
PhD student

Vincent Thibeault
PhD student

Zahra Yazdani
PhD student

Jérémi Lesage
MSc student

Benjamin Claveau
MSc student

Félix Olivier
Summer intern

Former members
Ilhem Bouderbala (Postdoc 2020–2022)
Marina Vegué Llorente (Postdoc 2020–2022)
Guillaume St-Onge ( PhD 2022)
Béatrice Désy ( MSc 2022; internship 2019–2020)
Heikel Jarras ( MSc 2023)
Simon Lizotte ( MSc 2022; internship 2020)
Francis Normand ( MSc 2022)
Olivier Ribordy ( MSc 2022; internship 2019)
François Thibault ( MSc 2022; internship 2019–2020)
Émile Baril (internship 2022)
Olivier Lapointe-Gagné (internship 2021)
Pierre-Luc Larouche (internship 2021)
Jérémi Lesage (internship 2021)
Bastian Raulier (internship 2020)

Publications

Listed in inverse chronological order; equal contributions are denoted by *.
Most of the publications below can also be found on arXiv or on Google Scholar.

Submitted manuscripts and preprints

Symmetry-driven embedding of networks in hyperbolic space
S. Lizotte, J.-G. Young and A. Allard
arXiv

Firing rate distributions in plastic networks of spiking neurons
M. Vegué, A. Allard and P. Desrosiers
arXiv

A probabilistic methodology to reconstruct biodiversity from implicit interactions with indicator species along latitudinal co-occurrence networks
I. Bouderbala, J. A. Tremblay, D. Fortin, A. Allard and P. Desrosiers
bioRxiv

Modeling critical connectivity constraints in random and empirical networks
L. Hébert-Dufresne, M. Pósfai and A. Allard
arXiv

Network Onion Divergence: Network representation and comparison using nested configuration models with fixed connectivity, correlation and centrality patterns
L. Hébert-Dufresne, J.-G. Young, A. Daniels and A. Allard
arXiv

The network epidemiology of an Ebola epidemic
L. Hébert-Dufresne, J.-G. Young, J. Bedson, L. A. Skrip, D. Pedi, M. F. Jalloh, B. Raulier, O. Lapointe-Gagné, A. Jambai, A. Allard and B. M. Althouse
arXiv

On the accuracy of message-passing approaches to percolation in complex networks
A. Allard and L. Hébert-Dufresne
arXiv

2020s

Duality between predictability and reconstructability in complex systems
C. Murphy, V. Thibeault, A. Allard and P. Desrosiers
Nature Communications 15, 4478 (2024)
Full text | arXiv | Code

The path of complexity
L. Hébert-Dufresne, A. Allard, J. Garland, E. A. Hobson and L. Zaman
npj Complexity 1, 4 (2024)
Full text

Escherichia coli CRISPR arrays from early life fecal samples preferentially target prophages
M. B. Dion, S. A. Shah, L. Deng, J. Thorsen, J. Stokholm, K. A. Krogfelt, S. Schjørring, P. Horvath, A. Allard, D. S. Nielsen, M.-A. Petit and S. Moineau
The ISME Journal 18, wrae005 (2024)
Full text

NBS-SNI, an extension of the Network-based statistic: Abnormal functional connections between important structural actors
F. Normand, M. Gajwani, D. C. Côté and A. Allard
Network Neuroscience 8, 44-80 (2024)
Full text | bioRxiv

The low-rank hypothesis of complex systems
V. Thibeault, A. Allard and P. Desrosiers
Nature Physics 20, 294–302 (2024)
Full text | arXiv | Code
Nat. Phys. News & Views
Cover image of Nat. Phys.

Geometric description of clustering in directed networks
A. Allard, M. Á. Serrano and M. Boguñá
Nature Physics 20, 150–156 (2024)
Full text | arXiv | Code

The umbrella value of caribou management strategies for biodiversity conservation in boreal forests under global change
G. Labadie, I. Bouderbala, Y. Boulanger, J.-M. Béland, C. Hébert, A. Allard, M. Hebblewhite and D. Fortin
Science of the Total Environment 907, 168087 (2024)
Full text

Nonlinear bias toward complex contagion in uncertain transmission settings
G. St-Onge, L. Hébert-Dufresne and A. Allard
Proceedings of the National Academy of Sciences USA 121, e2312202121 (2023)
Full text | arXiv | Code

The unintended consequences of inconsistent closure policies and mobility restrictions during epidemics
B. M. Althouse, B. Wallace, B. Case, S. V. Scarpino, A. Allard, A. M. Berdahl, E. R. White and L. Hébert-Dufresne
BMC Global and Public Health 1, 28 (2023)
Full text | medRxiv

Hypergraph reconstruction from uncertain pairwise observations
S. Lizotte, J.-G. Young and A. Allard
Scientific Reports 13, 21364 (2023)
Full text | arXiv

The D-Mercator method for the multidimensional hyperbolic embedding of real networks
R. Jankowski, A. Allard, M. Boguñá and M. Á. Serrano
Nature Communications 14, 7585 (2023)
Full text | arXiv
Nature communications’ Editors’ Highlights

Temporal and probabilistic forecasts of epidemic interventions
M. C. Boudreau, A. J. Allen, N. J. Roberts, A. Allard and L. Hébert-Dufresne
Bulletin of Mathematical Biology 85, 118 (2023)
Full text | arXiv

Hierarchical team structure and multidimensional localization (or siloing) on networks
L. Hébert-Dufresne, G. St-Onge, J. Meluso, J. P. Bagrow and A. Allard
Journal of Physics: Complexity 4, 035002 (2023)
Full text | arXiv

Exact and rapid linear clustering of networks with dynamic programming
A. Patania, A. Allard and J.-G. Young
Proceedings of the Royal Society A 479, 20230159 (2023)
Full text | arXiv

Dimension reduction of dynamics on modular and heterogeneous directed networks
M. Vegué, V. Thibeault, P. Desrosiers and A. Allard
PNAS Nexus 2, pgad150 (2023)
Full text | arXiv

Dimension matters when modeling network communities in hyperbolic spaces
B. Désy, P. Desrosiers and A. Allard
PNAS Nexus 2, pgad136 (2023)
Full text | arXiv

Effects of global change on bird and beetle populations in boreal forest landscape: An assemblage dissimilarity analysis
I. Bouderbala, G. Labadie, J.-M. Leblanc, Y. Boulanger, C. Hébert, P. Desrosiers, A. Allard and D. Fortin
Diversity and Distributions 29, 757-773 (2023)
Full text | bioRxiv

The role of directionality, heterogeneity and correlations in epidemic risk and spread
A. Allard, C. Moore, S. V. Scarpino, B. M. Althouse and L. Hébert-Dufresne
SIAM Review 65, 471-492 (2023)
Full text | arXiv

Long-term effect of forest harvesting on boreal species assemblages under climate change
I. Bouderbala, G. Labadie, J.-M. Leblanc, J. A. Tremblay, Y. Boulanger, C. Hébert, P. Desrosiers, A. Allard and D. Fortin
PLOS Climate 2, e0000179 (2023)
Full text | bioRxiv

Limits of Individual Consent and Models of Distributed Consent in Online Social Networks
J. Lovato, A. Allard, R. Harp, J. Onaolapo and L. Hébert-Dufresne
FAccT'22: 2022 ACM Conference on Fairness, Accountability, and Transparency 2251–2262 (2022)
Full text | arXiv | code

Predicting the diversity of early epidemic spread on networks
A. J. Allen, M. C. Boudreau, N. J. Roberts, A. Allard and L. Hébert-Dufresne
Physical Review Research 4, 013123 (2022)
Full text | arXiv

Influential groups for seeding and sustaining nonlinear contagion in heterogeneous hypergraphs
G. St-Onge, I. Iacopini, V. Latora, A. Barrat, G. Petri, A. Allard and L. Hébert-Dufresne
Communications Physics 5, 25 (2022)
Full text | arXiv

Universal Nonlinear Infection Kernel from Heterogeneous Exposure on Higher-Order Networks
G. St-Onge, H. Sun, A. Allard, L. Hébert-Dufresne and G. Bianconi
Physical Review Letters 127, 158301 (2021)
Full text | arXiv

Deep learning of contagion dynamics on complex networks
C. Murphy, E. Laurence and A. Allard
Nature Communications 12, 4720 (2021)
Full text | arXiv | code | data
Nature communications’ Editors’ Highlights

Social confinement and mesoscopic localization of epidemics on networks
G. St-Onge, V. Thibeault, A. Allard, L. J. Dubé and L. Hébert-Dufresne
Physical Review Letters 126, 098301 (2021)
Full text | arXiv

Master equation analysis of mesoscopic localization in contagion dynamics on higher-order networks
G. St-Onge, V. Thibeault, A. Allard, L. J. Dubé and L. Hébert-Dufresne
Physical Review E 103, 032301 (2021)
Full text | arXiv

La modélisation mathématique pour cartographier le complexe et l'inconnu
(Mapping the complex and the unknown with mathematical modeling)
A. Allard, L. J. Dubé and L. Hébert-Dufresne
ACFAS Magazine (2020)

Superspreading events in the transmission dynamics of SARS-CoV-2: Opportunities for interventions and control
B. M. Althouse, E. A. Wenger, J. C. Miller, S. V. Scarpino, A. Allard, L. Hébert-Dufresne and H. Hu
PLOS Biology 18, e3000897 (2020)
Full text | arXiv

Beyond R0: heterogeneity in secondary infections and probabilistic epidemic forecasting
L. Hébert-Dufresne, B. M. Althouse, S. V. Scarpino and A. Allard
Journal of the Royal Society Interface 17, 20200393 (2020)
Full text | arXiv | medRxiv

Geometric renormalization unravels self-similarity of the multiscale human connectome
M. Zheng, A. Allard, P. Hagmann, Y. Alemán-Gómez and M. Á. Serrano
Proceedings of the National Academy of Sciences USA 117, 20244 (2020)
Full text | arXiv

COVID-19: Cancel your next large event, and tell your friends to cancel theirs
G. St-Onge, V. Thibeault, A. Allard, L. J. Dubé and L. Hébert-Dufresne
medium.com

Genome-scale modeling of metabolism in the polar diatom Fragilariopsis cylindrus underscores the strong robustness of growth rate in response to cellular perturbations
M. Lavoie, B. Saint-Béat, J. Strauss, S. Guérin, A. Allard, S. V. Hardy, A. Falciatore and J. Lavaud
Biology 9, 30 (2020)
Full text

Navigable maps of structural brain networks across species
A. Allard and M. Á. Serrano
PLOS Computational Biology 16, e1007584 (2020)
Full text | arXiv | data

2010s

Mercator: uncovering faithful hyperbolic embeddings of complex networks
G. García-Pérez*, A. Allard*, M. Á. Serrano and M. Boguñá
New Journal of Physics 21, 123033 (2019)
Full text | arXiv | code

Smeared phase transition of percolation on real complex networks
L. Hébert-Dufresne and A. Allard
Physical Review Research 1, 013009 (2019)
Full text | arXiv

Percolation and the effective structure of complex networks
A. Allard and L. Hébert-Dufresne
Physical Review X 9, 011023 (2019)
Full text | arXiv | code

A new approach to international trade from Network Geometry: The World Trade Atlas 1870-2013
G. García-Pérez, M. Boguñá, A. Allard, and M. Á. Serrano
S. Gorgoni, A. Amighini, and M. Smith (Eds.), Vernon Press, ISBN 978-1622730650
Table of contents

Geometric evolution of complex networks with degree correlations
C. Murphy, A. Allard, E. Laurence, G. St-Onge and L. J. Dubé
Physical Review E 97, 032309 (2018)
Full text | arXiv

The risk of sustained sexual transmission of Zika is underestimated
A. Allard*, B. M. Althouse*, L. Hébert-Dufresne* and S. V. Scarpino*
PLOS Pathogens 13, e1006633 (2017)
Full text | bioRxiv

Asymmetric percolation drives a double transition in sexual contact networks
A. Allard, B. M. Althouse, S. V. Scarpino and L. Hébert-Dufresne
Proceedings of the National Academy of Sciences USA 114, 8969-8973 (2017)
Full text | arXiv

Strategic tradeoffs in competitor dynamics on adaptive networks
L. Hébert-Dufresne, A. Allard, P.-A. Noël, J.-G. Young and E. Libby
Scientific Reports 7, 7576 (2017)
Full text | arXiv

The geometric nature of weights in real complex networks
A. Allard, M. Á. Serrano, G. García-Pérez and M. Boguñá
Nature Communications 8, 14103 (2017)
Full text | arXiv
Nat. Phys. Research Highlights
Nature Communications' web collection on complex systems

Growing networks of overlapping communities with internal structure
J.-G. Young, L. Hébert-Dufresne, A. Allard, and L. J. Dubé
Physical Review E 94, 022317 (2016)
Full text | arXiv | code

Multi-scale structure and topological anomaly detection via a new network statistic: The onion decomposition
L. Hébert-Dufresne, J. A. Grochow, and A. Allard
Scientific Reports 6, 31708 (2016)
Full text | arXiv | code

The effect of a prudent adaptive behaviour on disease transmission
S. V. Scarpino, A. Allard, L. Hébert-Dufresne
Nature Physics 12, 1042-1046 (2016)
Full text | arXiv
Nat. Phys. News & Views

Constrained growth of complex scale-independent systems
L. Hébert-Dufresne, A. Allard, J.-G. Young, and L. J. Dubé
Physical Review E 93, 032304 (2016)
Full text | arXiv
★ In the Editors' Suggestions section of Physical Review E.

The hidden hyperbolic geometry of international trade: World Trade Atlas 1870-2013
G. García-Pérez, M. Boguñá, A. Allard, and M. Á. Serrano
Scientific Reports 6, 33441 (2016)
Full text | arXiv | Interactive map
★ Featured in the section Economía of the newspaper El Periódico.

Complex networks as an emerging property of hierarchical preferential attachment
L. Hébert-Dufresne, E. Laurence, A. Allard, J.-G. Young and L. J. Dubé
Physical Review E 92, 062809 (2015)
Full text | arXiv | code

General and exact approach to percolation on random graphs
A. Allard, L. Hébert-Dufresne, J.-G. Young and L. J. Dubé
Physical Review E 92, 062807 (2015)
Full text | arXiv

A shadowing problem in the detection of overlapping communities: lifting the resolution limit through a cascading procedure
J.-G. Young, A. Allard, L. Hébert-Dufresne and L. J. Dubé
PLOS ONE 10, e0140133 (2015)
Full text | arXiv | code

The Social Zombie: Modelling undead outbreaks on social networks
L. Hébert-Dufresne, V. Marceau, P.-A. Noël, A. Allard, and L. J. Dubé
Robert Smith? (Ed.), University of Ottawa Press, ISBN 978-0776622101
Table of contents

Spreading dynamics on complex networks: a general stochastic approach
P.-A. Noël, A. Allard, L. Hébert-Dufresne, V. Marceau and L. J. Dubé
Journal of Mathematical Biology 69, 1627 (2014)
Full text | arXiv

A system-level model for the microbial regulatory genome
A. N. Brooks, D. J. Reiss, A. Allard, W.-J. Wu, D. M. Salvanha, C. L. Plaisier, S. Chandrasekaran, M. Pan, A. Kaur and N. S. Baliga
Molecular Systems Biology 10, 740 (2014)
Full text

Coexistence of phases and the observability of random graphs
A. Allard, L. Hébert-Dufresne, J.-G. Young and L. J. Dubé
Physical Review E 89, 022801 (2014)
Full text | arXiv
★ In the Editors' Suggestions section of Physical Review E.

Percolation sur graphes aléatoires: Modélisation et description analytique
(Percolation on random graphs: Modelling and analytical description)
Ph.D. Thesis, Université Laval (2014)
Full text

Percolation on random networks with arbitrary k-core structure
L. Hébert-Dufresne*, A. Allard*, J.-G. Young and L. J. Dubé
Physical Review E 88, 062820 (2013)
Full text | arXiv

Global efficiency of local immunization of complex networks
L. Hébert-Dufresne*, A. Allard*, J.-G. Young* and L. J. Dubé
Scientific Reports 3, 2171 (2013)
Full text | arXiv

Bond percolation on a class of correlated and clustered random graphs
A. Allard, L. Hébert-Dufresne, P.-A. Noël, V. Marceau and L. J. Dubé
Journal of Physics A 45, 405005 (2012)
Full text | arXiv

Exact solution of bond percolation on small arbitrary graphs
A. Allard, L. Hébert-Dufresne, P.-A. Noël, V. Marceau and L. J. Dubé
Europhysics Letters (EPL) 98, 16001 (2012)
Full text | arXiv

Propagation on networks: An exact alternative perspective
P.-A. Noël, A. Allard, L. Hébert-Dufresne, V. Marceau and L. J. Dubé
Physical Review E 85, 031118 (2012)
Full text | arXiv

Structural preferential attachment: Stochastic process for the growth of scale-free, modular and self-similar systems
L. Hébert-Dufresne, A. Allard, V. Marceau, P.-A. Noël and L. J. Dubé
Physical Review E 85, 026108 (2012)
Full text | arXiv | code

Structural Preferential Attachment: Network Organization beyond the Link
L. Hébert-Dufresne, A. Allard, V. Marceau, P.-A. Noël and L. J. Dubé
Physical Review Letters 107, 158702 (2011)
Full text | arXiv | code

Modeling the dynamical interaction between epidemics on overlay networks
V. Marceau, P.-A. Noël, L. Hébert-Dufresne, A. Allard and L. J. Dubé
Physical Review E 84, 026105 (2011)
Full text | arXiv

Propagation dynamics on networks featuring complex topologies
L. Hébert-Dufresne, P.-A. Noël, V. Marceau, A. Allard and L. J. Dubé
Physical Review E 82, 036115 (2010)
Full text | arXiv
★ Also in the Virtual Journal of Biological Physics Research, issue 7, vol. 20 (2010)

Adaptive networks: Coevolution of disease and topology
V. Marceau, P.-A. Noël, L. Hébert-Dufresne, A. Allard and L. J. Dubé
Physical Review E 82, 036116 (2010)
Full text | arXiv
★ Also in the Virtual Journal of Biological Physics Research, issue 7, vol. 20 (2010)

2000s

Heterogeneous Bond Percolation on Multitype Networks with an Application to Epidemic Dynamics
A. Allard, P.-A. Noël, L. J. Dubé and B. Pourbohloul
Physical Review E 79, 036113 (2009)
Full text | arXiv
★ Also in the Virtual Journal of Biological Physics Research, issue 7, vol. 17 (2009)

Des Ponts d'Euler à la Grippe Aviaire: De l'abstraction mathématique à la réalité sociale des épidémies
(From Euler Bridges to the Avian Flu: From Mathematical Abstraction to the Social Reality of Epidemics)
A. Allard, P.-A. Noël, and L. J. Dubé
Accromath 4, 24-29 (2009)
Full text

Modélisation Mathématique en Epidémiologie par Réseaux de Contacts: Introduction de l'Hétérogénéité dans la Transmissibilité
(Mathematical Modelling in Contact Networks for Epidemiology: Introduction of Heterogenity in Transmissibility)
M.Sc. Thesis, Université Laval (2008)
Full text