RankMerging: A supervised learning-to-rank framework to predict links in large social network

Uncovering unknown or missing links in social networks is a difficult task because of their sparsity and because links may represent different types of relationships, characterized by different structural patterns. In this paper, we define a simple yet efficient supervised learning-to-rank framework, called RankMerging, which aims at combining information provided by various unsupervised rankings. We illustrate our method on three different kinds of social networks and show that it substantially improves the performances of unsupervised metrics of ranking. We also compare it to other combination strategies based on standard methods. Finally, we explore various aspects of RankMerging, such as feature selection and parameter estimation and discuss its area of relevance: the prediction of an adjustable number of links on large networks.Comment: 43 pages, published in Machine Learning Journa

Identification of functionally related enzymes by learning-to-rank methods

Enzyme sequences and structures are routinely used in the biological sciences as queries to search for functionally related enzymes in online databases. To this end, one usually departs from some notion of similarity, comparing two enzymes by looking for correspondences in their sequences, structures or surfaces. For a given query, the search operation results in a ranking of the enzymes in the database, from very similar to dissimilar enzymes, while information about the biological function of annotated database enzymes is ignored. In this work we show that rankings of that kind can be substantially improved by applying kernel-based learning algorithms. This approach enables the detection of statistical dependencies between similarities of the active cleft and the biological function of annotated enzymes. This is in contrast to search-based approaches, which do not take annotated training data into account. Similarity measures based on the active cleft are known to outperform sequence-based or structure-based measures under certain conditions. We consider the Enzyme Commission (EC) classification hierarchy for obtaining annotated enzymes during the training phase. The results of a set of sizeable experiments indicate a consistent and significant improvement for a set of similarity measures that exploit information about small cavities in the surface of enzymes

Supervised Random Walks: Predicting and Recommending Links in Social Networks

Predicting the occurrence of links is a fundamental problem in networks. In the link prediction problem we are given a snapshot of a network and would like to infer which interactions among existing members are likely to occur in the near future or which existing interactions are we missing. Although this problem has been extensively studied, the challenge of how to effectively combine the information from the network structure with rich node and edge attribute data remains largely open. We develop an algorithm based on Supervised Random Walks that naturally combines the information from the network structure with node and edge level attributes. We achieve this by using these attributes to guide a random walk on the graph. We formulate a supervised learning task where the goal is to learn a function that assigns strengths to edges in the network such that a random walker is more likely to visit the nodes to which new links will be created in the future. We develop an efficient training algorithm to directly learn the edge strength estimation function. Our experiments on the Facebook social graph and large collaboration networks show that our approach outperforms state-of-the-art unsupervised approaches as well as approaches that are based on feature extraction