Link Prediction in Complex Networks: A Survey

Link prediction in complex networks has attracted increasing attention from both physical and computer science communities. The algorithms can be used to extract missing information, identify spurious interactions, evaluate network evolving mechanisms, and so on. This article summaries recent progress about link prediction algorithms, emphasizing on the contributions from physical perspectives and approaches, such as the random-walk-based methods and the maximum likelihood methods. We also introduce three typical applications: reconstruction of networks, evaluation of network evolving mechanism and classification of partially labelled networks. Finally, we introduce some applications and outline future challenges of link prediction algorithms.Comment: 44 pages, 5 figure

TempME: Towards the Explainability of Temporal Graph Neural Networks via Motif Discovery

Temporal graphs are widely used to model dynamic systems with time-varying interactions. In real-world scenarios, the underlying mechanisms of generating future interactions in dynamic systems are typically governed by a set of recurring substructures within the graph, known as temporal motifs. Despite the success and prevalence of current temporal graph neural networks (TGNN), it remains uncertain which temporal motifs are recognized as the significant indications that trigger a certain prediction from the model, which is a critical challenge for advancing the explainability and trustworthiness of current TGNNs. To address this challenge, we propose a novel approach, called Temporal Motifs Explainer (TempME), which uncovers the most pivotal temporal motifs guiding the prediction of TGNNs. Derived from the information bottleneck principle, TempME extracts the most interaction-related motifs while minimizing the amount of contained information to preserve the sparsity and succinctness of the explanation. Events in the explanations generated by TempME are verified to be more spatiotemporally correlated than those of existing approaches, providing more understandable insights. Extensive experiments validate the superiority of TempME, with up to 8.21% increase in terms of explanation accuracy across six real-world datasets and up to 22.96% increase in boosting the prediction Average Precision of current TGNNs.Comment: Accepted at NeurIPS 2023, Camera Ready Versio

Complex networks and public funding: the case of the 2007-2013 Italian program

In this paper we apply techniques of complex network analysis to data sources representing public funding programs and discuss the importance of the considered indicators for program evaluation. Starting from the Open Data repository of the 2007-2013 Italian Program Programma Operativo Nazionale 'Ricerca e Competitivit\`a' (PON R&C), we build a set of data models and perform network analysis over them. We discuss the obtained experimental results outlining interesting new perspectives that emerge from the application of the proposed methods to the socio-economical evaluation of funded programs.Comment: 22 pages, 9 figure

visone - Software for the Analysis and Visualization of Social Networks

We present the software tool visone which combines graph-theoretic methods for the analysis of social networks with tailored means of visualization. Our main contribution is the design of novel graph-layout algorithms which accurately reflect computed analyses results in well-arranged drawings of the networks under consideration. Besides this, we give a detailed description of the design of the software tool and the provided analysis methods

A Survey on the Network Models applied in the Industrial Network Optimization

Network architecture design is very important for the optimization of industrial networks. The type of network architecture can be divided into small-scale network and large-scale network according to its scale. Graph theory is an efficient mathematical tool for network topology modeling. For small-scale networks, its structure often has regular topology. For large-scale networks, the existing research mainly focuses on the random characteristics of network nodes and edges. Recently, popular models include random networks, small-world networks and scale-free networks. Starting from the scale of network, this survey summarizes and analyzes the network modeling methods based on graph theory and the practical application in industrial scenarios. Furthermore, this survey proposes a novel network performance metric - system entropy. From the perspective of mathematical properties, the analysis of its non-negativity, monotonicity and concave-convexity is given. The advantage of system entropy is that it can cover the existing regular network, random network, small-world network and scale-free network, and has strong generality. The simulation results show that this metric can realize the comparison of various industrial networks under different models.Comment: 26 pages, 11 figures, Journa

Structure and topology of transcriptional regulatory networks and their applications in bio-inspired networking

Biological networks carry out vital functions necessary for sustenance despite environmental adversities. Transcriptional Regulatory Network (TRN) is one such biological network that is formed due to the interaction between proteins, called Transcription Factors (TFs), and segments of DNA, called genes. TRNs are known to exhibit functional robustness in the face of perturbation or mutation: a property that is proven to be a result of its underlying network topology. In this thesis, we first propose a three-tier topological characterization of TRN to analyze the interplay between the significant graph-theoretic properties of TRNs such as scale-free out-degree distribution, low graph density, small world property and the abundance of subgraphs called motifs. Specifically, we pinpoint the role of a certain three-node motif, called Feed Forward Loop (FFL) motif in topological robustness as well as information spread in TRNs. With the understanding of the TRN topology, we explore its potential use in design of fault-tolerant communication topologies. To this end, we first propose an edge rewiring mechanism that remedies the vulnerability of TRNs to the failure of well-connected nodes, called hubs, while preserving its other significant graph-theoretic properties. We apply the rewired TRN topologies in the design of wireless sensor networks that are less vulnerable to targeted node failure. Similarly, we apply the TRN topology to address the issues of robustness and energy-efficiency in the following networking paradigms: robust yet energy-efficient delay tolerant network for post disaster scenarios, energy-efficient data-collection framework for smart city applications and a data transfer framework deployed over a fog computing platform for collaborative sensing --Abstract, page iii