Neural‑Brane: Neural Bayesian Personalized Ranking for Attributed Network Embedding

Network embedding methodologies, which learn a distributed vector representation for each vertex in a network, have attracted considerable interest in recent years. Existing works have demonstrated that vertex representation learned through an embedding method provides superior performance in many real-world applications, such as node classification, link prediction, and community detection. However, most of the existing methods for network embedding only utilize topological information of a vertex, ignoring a rich set of nodal attributes (such as user profiles of an online social network, or textual contents of a citation network), which is abundant in all real-life networks. A joint network embedding that takes into account both attributional and relational information entails a complete network information and could further enrich the learned vector representations. In this work, we present Neural-Brane, a novel Neural Bayesian Personalized Ranking based Attributed Network Embedding. For a given network, Neural-Brane extracts latent feature representation of its vertices using a designed neural network model that unifies network topological information and nodal attributes. Besides, it utilizes Bayesian personalized ranking objective, which exploits the proximity ordering between a similar node pair and a dissimilar node pair. We evaluate the quality of vertex embedding produced by Neural-Brane by solving the node classification and clustering tasks on four real-world datasets. Experimental results demonstrate the superiority of our proposed method over the state-of-the-art existing methods

Ranking relations using analogies in biological and information networks

Analogical reasoning depends fundamentally on the ability to learn and generalize about relations between objects. We develop an approach to relational learning which, given a set of pairs of objects $\mathbf{S}=\{A^{(1)}:B^{(1)},A^{(2)}:B^{(2)},\ldots,A^{(N)}:B ^{(N)}\}$, measures how well other pairs A:B fit in with the set $\mathbf{S}$. Our work addresses the following question: is the relation between objects A and B analogous to those relations found in $\mathbf{S}$? Such questions are particularly relevant in information retrieval, where an investigator might want to search for analogous pairs of objects that match the query set of interest. There are many ways in which objects can be related, making the task of measuring analogies very challenging. Our approach combines a similarity measure on function spaces with Bayesian analysis to produce a ranking. It requires data containing features of the objects of interest and a link matrix specifying which relationships exist; no further attributes of such relationships are necessary. We illustrate the potential of our method on text analysis and information networks. An application on discovering functional interactions between pairs of proteins is discussed in detail, where we show that our approach can work in practice even if a small set of protein pairs is provided.Comment: Published in at http://dx.doi.org/10.1214/09-AOAS321 the Annals of Applied Statistics (http://www.imstat.org/aoas/) by the Institute of Mathematical Statistics (http://www.imstat.org

On Multi-Relational Link Prediction with Bilinear Models

We study bilinear embedding models for the task of multi-relational link prediction and knowledge graph completion. Bilinear models belong to the most basic models for this task, they are comparably efficient to train and use, and they can provide good prediction performance. The main goal of this paper is to explore the expressiveness of and the connections between various bilinear models proposed in the literature. In particular, a substantial number of models can be represented as bilinear models with certain additional constraints enforced on the embeddings. We explore whether or not these constraints lead to universal models, which can in principle represent every set of relations, and whether or not there are subsumption relationships between various models. We report results of an independent experimental study that evaluates recent bilinear models in a common experimental setup. Finally, we provide evidence that relation-level ensembles of multiple bilinear models can achieve state-of-the art prediction performance

Applying graph centrality metrics in visual analytics of scientific standard datasets

© 2019 by the authors. Graphs are often used to model data with a relational structure and graphs are usually visualised into node-link diagrams for a better understanding of the underlying data. Node-link diagrams represent not only data entries in a graph, but also the relations among the data entries. Further, many graph drawing algorithms and graph centrality metrics have been successfully applied in visual analytics of various graph datasets, yet little attention has been paid to analytics of scientific standard data. This study attempts to adopt graph drawing methods (force-directed algorithms) to visualise scientific standard data and provide information with importance �ranking� based on graph centrality metrics such as Weighted Degree, PageRank, Eigenvector, Betweenness and Closeness factors. The outcomes show that our method can produce clear graph layouts of scientific standard for visual analytics, along with the importance �ranking� factors (represent via node colour, size etc.). Our method may assist users with tracking various relationships while understanding scientific standards with fewer relation issues (missing/wrong connection etc.) through focusing on higher priority standards