arXiv subjects

M. Ángeles Serrano

Publications and source records attributed to M. Ángeles Serrano.

At least 37 records · Page 2Linked to original sources

arXiv2024

Feature-aware ultra-low dimensional reduction of real networks

In existing models and embedding methods of networked systems, node features describing their qualities are usually overlooked in favor of focusing solely on node connectivity. This study introduces $FiD$-Mercator, a model-based ultra-low dimensional reduction technique that integrates node features with network structure to create $D$-dimensional maps of complex networks in a hyperbolic space. This embedding method efficiently uses features as an initial condition, guiding the search of nodes' coordinates towards an optimal solution. The research reveals that downstream task performance improves with the correlation between network connectivity and features, emphasizing the importance of such correlation for enhancing the description and predictability of real networks. Simultaneously, hyperbolic embedding's ability to reproduce local network properties remains unaffected by the inclusion of features. The findings highlight the necessity for developing network embedding techniques capable of exploiting such correlations to optimize both network structure and feature association jointly in the future.

physics.soc-ph↗

arXiv2024

Hyperbolic Benchmarking Unveils Network Topology-Feature Relationship in GNN Performance

Graph Neural Networks (GNNs) have excelled in predicting graph properties in various applications ranging from identifying trends in social networks to drug discovery and malware detection. With the abundance of new architectures and increased complexity, GNNs are becoming highly specialized when tested on a few well-known datasets. However, how the performance of GNNs depends on the topological and features properties of graphs is still an open question. In this work, we introduce a comprehensive benchmarking framework for graph machine learning, focusing on the performance of GNNs across varied network structures. Utilizing the geometric soft configuration model in hyperbolic space, we generate synthetic networks with realistic topological properties and node feature vectors. This approach enables us to assess the impact of network properties, such as topology-feature correlation, degree distributions, local density of triangles (or clustering), and homophily, on the effectiveness of different GNN architectures. Our results highlight the dependency of model performance on the interplay between network structure and node features, providing insights for model selection in various scenarios. This study contributes to the field by offering a versatile tool for evaluating GNNs, thereby assisting in developing and selecting suitable models based on specific data characteristics.

cs.LG↗

arXiv2023

Feature-enriched hyperbolic network geometry

Graph-structured data provide a comprehensive description of complex systems, encompassing not only the interactions among nodes but also the intrinsic features that characterize these nodes. These features play a fundamental role in the formation of links within the network, making them valuable for extracting meaningful topological information. Notably, features are at the core of deep learning techniques such as Graph Convolutional Neural Networks (GCNs) and offer great utility in tasks like node classification, link prediction, and graph clustering. In this paper, we present a comprehensive framework that treats features as tangible entities and establishes a bipartite graph connecting nodes and features. By assuming that nodes sharing similarities should also share features, we introduce a hyperbolic geometric space where both nodes and features coexist, shaping the structure of both the node network and the bipartite network of nodes and features. Through this framework, we can identify correlations between nodes and features in real data and generate synthetic datasets that mimic the topological properties of their connectivity patterns. The approach provides insights into the inner workings of GCNs by revealing the intricate structure of the data.

physics.soc-ph↗

arXiv2023

Optimal navigability of weighted human brain connectomes in physical space

The architecture of the human connectome supports efficient communication protocols relying either on distances between brain regions or on the intensities of connections. However, none of these protocols combines information about the two or reaches full efficiency. Here, we introduce a continuous spectrum of decentralized routing strategies that combine link weights and the spatial embedding of connectomes to transmit signals. We applied the protocols to individual connectomes in two cohorts, and to cohort archetypes designed to capture weighted connectivity properties. We found that there is an intermediate region, a sweet spot, in which navigation achieves maximum communication efficiency at low transmission cost. Interestingly, this phenomenon is robust and independent of the particular configuration of weights.Our results indicate that the intensity and topology of neural connections and brain geometry interplay to boost communicability, fundamental to support effective responses to external and internal stimuli and the diversity of brain functions.

q-bio.NC↗

arXiv2023

The D-Mercator method for the multidimensional hyperbolic embedding of real networks

One of the pillars of the geometric approach to networks has been the development of model-based mapping tools that embed real networks in its latent geometry. In particular, the tool Mercator embeds networks into the hyperbolic plane. However, some real networks are better described by the multidimensional formulation of the underlying geometric model. Here, we introduce $D$-Mercator, a model-based embedding method that produces multidimensional maps of real networks into the $(D+1)$-hyperbolic space, where the similarity subspace is represented as a $D$-sphere. We used $D$-Mercator to produce multidimensional hyperbolic maps of real networks and estimated their intrinsic dimensionality in terms of navigability and community structure. Multidimensional representations of real networks are instrumental in the identification of factors that determine connectivity and in elucidating fundamental issues that hinge on dimensionality, such as the presence of universality in critical behavior.

physics.soc-ph↗

arXiv2023

Geometric renormalization of weighted networks

The geometric renormalization technique for complex networks has successfully revealed the multiscale self-similarity of real network topologies and can be applied to generate replicas at different length scales. In this letter, we extend the geometric renormalization framework to weighted networks, where the intensities of the interactions play a crucial role in their structural organization and function. Our findings demonstrate that weights in real networks exhibit multiscale self-similarity under a renormalization protocol that selects the connections with the maximum weight across increasingly longer length scales. We present a theory that elucidates this symmetry, and that sustains the selection of the maximum weight as a meaningful procedure. Based on our results, scaled-down replicas of weighted networks can be straightforwardly derived, facilitating the investigation of various size-dependent phenomena in downstream applications.

physics.soc-ph↗

arXiv2023

Geometric description of clustering in directed networks

First principle network models are crucial to make sense of the intricate topology of real complex networks. While modeling efforts have been quite successful in undirected networks, generative models for networks with asymmetric interactions are still not well developed and are unable to reproduce several basic topological properties. This is particularly disconcerting considering that real directed networks are the norm rather than the exception in many natural and human-made complex systems. In this paper, we fill this gap and show how the network geometry paradigm can be elegantly extended to the case of directed networks. We define a maximum entropy ensemble of geometric (directed) random graphs with a given sequence of in- and out-degrees. Beyond these local properties, the ensemble requires only two additional parameters to fix the level of reciprocity and the seven possible types of 3-node cycles in directed networks. A systematic comparison with several representative empirical datasets shows that fixing the level of reciprocity alongside the coupling with an underlying geometry is able to reproduce the wide diversity of clustering patterns observed in real complex directed networks.

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arXiv2022

Emergence of geometric Turing patterns in complex networks

Turing patterns, arising from the interplay between competing species of diffusive particles, has long been an important concept for describing non-equilibrium self-organization in nature, and has been extensively investigated in many chemical and biological systems. Historically, these patterns have been studied in extended systems and lattices. Recently, the Turing instability was found to produce topological patterns in networks with scale-free degree distributions and the small world property, although with an apparent absence of geometric organization. While hints of explicitly geometric patterns in simple network models (e.g Watts-Strogatz) have been found, the question of the exact nature and morphology of geometric Turing patterns in heterogeneous complex networks remains unresolved. In this work, we study the Turing instability in the framework of geometric random graph models, where the network topology is explained by an underlying geometric space. We demonstrate that not only can geometric patterns be observed, their wavelength can also be estimated by studying the eigenvectors of the annealed graph Laplacian. Finally, we show that Turing patterns can be found in geometric embeddings of real networks. These results indicate that there is a profound connection between the function of a network and its hidden geometry, even when the associated dynamical processes are exclusively determined by the network topology.

nlin.PS↗

arXiv2022

Multiscale Voter Model on Real Networks

We introduce the Multiscale Voter Model (MVM) to investigate clan influence at multiple scale -- family, neighborhood, political party... -- in opinion formation on real complex networks. Clans, consisting of similar nodes, are constructed using a coarse-graining procedure on network embeddings that allows us to control for the length scale of interactions. We ran numerical simulations to monitor the evolution of MVM dynamics in real and synthetic networks, and identified a transition between a final stage of full consensus and one with mixed binary opinions. The transition depends on the scale of the clans and on the strength of their influence. We found that enhancing group diversity promotes consensus while strong kinship yields to metastable clusters of same opinion. The segregated domains, which signal opinion polarization, are discernible as spatial patterns in the hyperbolic embeddings of the networks. Our multiscale framework can be easily applied to other dynamical processes affected by scale and group influence.

physics.soc-ph↗

arXiv2022

A geometry-induced topological phase transition in random graphs

Clustering $\unicode{x2013}$ the tendency for neighbors of nodes to be connected $\unicode{x2013}$ quantifies the coupling of a complex network to its latent metric space. In random geometric graphs, clustering undergoes a continuous phase transition, separating a phase with finite clustering from a regime where clustering vanishes in the thermodynamic limit. We prove this geometric-to-nongeometric phase transition to be topological in nature, with anomalous features such as diverging entropy as well as atypical finite size scaling behavior of clustering. Moreover, a slow decay of clustering in the nongeometric phase implies that some real networks with relatively high levels of clustering may be better described in this regime.

physics.soc-ph↗

arXiv2020

Geometric renormalization unravels self-similarity of the multiscale human connectome

Structural connectivity in the brain is typically studied by reducing its observation to a single spatial resolution. However, the brain possesses a rich architecture organized over multiple scales linked to one another. We explored the multiscale organization of human connectomes using datasets of healthy subjects reconstructed at five different resolutions. We found that the structure of the human brain remains self-similar when the resolution of observation is progressively decreased by hierarchical coarse-graining of the anatomical regions. Strikingly, a geometric network model, where distances are not Euclidean, predicts the multiscale properties of connectomes, including self-similarity. The model relies on the application of a geometric renormalization protocol which decreases the resolution by coarse-graining and averaging over short similarity distances. Our results suggest that simple organizing principles underlie the multiscale architecture of human structural brain networks, where the same connectivity law dictates short- and long-range connections between different brain regions over many resolutions. The implications are varied and can be substantial for fundamental debates, such as whether the brain is working near a critical point, as well as for applications including advanced tools to simplify the digital reconstruction and simulation of the brain.

physics.soc-ph↗

arXiv2020

Geometric detection of hierarchical backbones in real networks

Hierarchies permeate the structure of real networks, whose nodes can be ranked according to different features. However, networks are far from tree-like structures and the detection of hierarchical ordering remains a challenge, hindered by the small-world property and the presence of a large number of cycles, in particular clustering. Here, we use geometric representations of undirected networks to achieve an enriched interpretation of hierarchy that integrates features defining popularity of nodes and similarity between them, such that the more similar a node is to a less popular neighbor the higher the hierarchical load of the relationship. The geometric approach allows us to measure the local contribution of nodes and links to the hierarchy within a unified framework. Additionally, we propose a link filtering method, the similarity filter, able to extract hierarchical backbones containing the links that represent statistically significant deviations with respect to the maximum entropy null model for geometric heterogeneous networks. We applied our geometric approach to the detection of similarity backbones of real networks in different domains and found that the backbones preserve local topological features at all scales. Interestingly, we also found that similarity backbones favor cooperation in evolutionary dynamics modelling social dilemmas.

physics.soc-ph↗

arXiv2020

Scaling up real networks by geometric branching growth

Real networks often grow through the sequential addition of new nodes that connect to older ones in the graph. However, many real systems evolve through the branching of fundamental units, whether those be scientific fields, countries, or species. Here, we provide empirical evidence for self-similar growth of network structure in the evolution of real systems and present the Geometric Branching Growth model, which predicts this evolution and explains the symmetries observed. The model produces multiscale unfolding of a network in a sequence of scaled-up replicas preserving network features, including clustering and community structure, at all scales. Practical applications in real instances include the tuning of network size for best response to external influence and finite-size scaling to assess critical behavior under random link failures.

physics.soc-ph↗

arXiv2020

Navigable maps of structural brain networks across species

Connectomes are spatially embedded networks whose architecture has been shaped by physical constraints and communication needs throughout evolution. Using a decentralized navigation protocol, we investigate the relationship between the structure of the connectomes of different species and their spatial layout. As a navigation strategy, we use greedy routing where nearest neighbors, in terms of geometric distance, are visited. We measure the fraction of successful greedy paths and their length as compared to shortest paths in the topology of connectomes. In Euclidean space, we find a striking difference between the navigability properties of mammalian and non-mammalian species, which implies the inability of Euclidean distances to fully explain the structural organization of their connectomes. In contrast, we find that hyperbolic space, the effective geometry of complex networks, provides almost perfectly navigable maps of connectomes for all species, meaning that hyperbolic distances are exceptionally congruent with the structure of connectomes. Hyperbolic maps therefore offer a quantitative meaningful representation of connectomes that suggests a new cartography of the brain based on the combination of its connectivity with its effective geometry rather than on its anatomy only. Hyperbolic maps also provide a universal framework to study decentralized communication processes in connectomes of different species and at different scales on an equal footing.

q-bio.NC↗

arXiv2019

Mercator: uncovering faithful hyperbolic embeddings of complex networks

We introduce Mercator, a reliable embedding method to map real complex networks into their hyperbolic latent geometry. The method assumes that the structure of networks is well described by the Popularity$\times$Similarity $\mathbb{S}^1/\mathbb{H}^2$ static geometric network model, which can accommodate arbitrary degree distributions and reproduces many pivotal properties of real networks, including self-similarity patterns. The algorithm mixes machine learning and maximum likelihood approaches to infer the coordinates of the nodes in the underlying hyperbolic disk with the best matching between the observed network topology and the geometric model. In its fast mode, Mercator uses a model-adjusted machine learning technique performing dimensional reduction to produce a fast and accurate map, whose quality already outperform other embedding algorithms in the literature. In the refined Mercator mode, the fast-mode embedding result is taken as an initial condition in a Maximum Likelihood estimation, which significantly improves the quality of the final embedding. Apart from its accuracy as an embedding tool, Mercator has the clear advantage of systematically inferring not only node orderings, or angular positions, but also the hidden degrees and global model parameters, and has the ability to embed networks with arbitrary degree distributions. Overall, our results suggest that mixing machine learning and maximum likelihood techniques in a model-dependent framework can boost the meaningful mapping of complex networks.

physics.soc-ph↗

arXiv2019

Predictability of missing links in complex networks

Predicting missing links in real networks is an important problem in network science to which considerable efforts have been devoted, giving as a result a vast plethora of link prediction methods in the literature. In this work, we take a different point of view on the problem and study the theoretical limitations to the predictability of missing links. In particular, we hypothesise that there is an irreducible uncertainty in link prediction on real networks as a consequence of the random nature of their formation process. By considering ensembles defined by well-known network models, we prove analytically that even the best possible link prediction method for an ensemble, given by the ranking of the ensemble connection probabilities, yields a limited precision. This result suggests a theoretical limitation to the predictability of links in real complex networks. Finally, we show that connection probabilities inferred by fitting network models to real networks allow to estimate an upper-bound to the predictability of missing links, and we further propose a method to approximate such bound from incomplete instances of real-world networks.

physics.soc-ph↗

arXiv2019

The interconnected wealth of nations: Shock propagation on global trade-investment multiplex networks

The increasing integration of world economies, which organize in complex multilayer networks of interactions, is one of the critical factors for the global propagation of economic crises. We adopt the network science approach to quantify shock propagation on the global trade-investment multiplex network. To this aim, we propose a model that couples a Susceptible-Infected-Recovered epidemic spreading dynamics, describing how economic distress propagates between connected countries, with an internal contagion mechanism, describing the spreading of such economic distress within a given country. At the local level, we find that the interplay between trade and financial interactions influences the vulnerabilities of countries to shocks. At the large scale, we find a simple linear relation between the relative magnitude of a shock in a country and its global impact on the whole economic system, albeit the strength of internal contagion is country-dependent and the intercountry propagation dynamics is non-linear. Interestingly, this systemic impact can be predicted on the basis of intra-layer and inter-layer scale factors that we name network multipliers, that are independent of the magnitude of the initial shock. Our model sets-up a quantitative framework to stress-test the robustness of individual countries and of the world economy to propagating crashes.

physics.soc-ph↗

arXiv2018

Geometric randomization of real networks with prescribed degree sequence

We introduce a model for the randomization of complex networks with geometric structure. The geometric randomization (GR) model assumes a homogeneous distribution of the nodes in an underlying similarity space and uses rewirings of the links to find configurations that maximize a connection probability akin to that of the $\mathbb{S}^1$ or $\mathbb{H}^2$ geometric network models. However, GR preserves the original degree sequence, as in the configuration model, thus eliminating the fluctuations of the degree cutoff. Moreover, the model does not require the explicit estimation of hidden degree variables, which restricts the number of free parameters to one, controlling the level of clustering in the rewired network. We illustrate the potential of GR as a null model by investigating the effects on modularity that derive from the flattening of geometric communities in both real and synthetic networks. As a result, we find that for real networks the geometric and topological communities are consistent, while for the randomized counterparts, the topological communities detected are attributable to structural constraints induced by the underlying geometric architecture.

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