A survey of outlier detection methodologies

Outlier detection has been used for centuries to detect and, where appropriate, remove anomalous observations from data. Outliers arise due to mechanical faults, changes in system behaviour, fraudulent behaviour, human error, instrument error or simply through natural deviations in populations. Their detection can identify system faults and fraud before they escalate with potentially catastrophic consequences. It can identify errors and remove their contaminating effect on the data set and as such to purify the data for processing. The original outlier detection methods were arbitrary but now, principled and systematic techniques are used, drawn from the full gamut of Computer Science and Statistics. In this paper, we introduce a survey of contemporary techniques for outlier detection. We identify their respective motivations and distinguish their advantages and disadvantages in a comparative review

Clustering Memes in Social Media

The increasing pervasiveness of social media creates new opportunities to study human social behavior, while challenging our capability to analyze their massive data streams. One of the emerging tasks is to distinguish between different kinds of activities, for example engineered misinformation campaigns versus spontaneous communication. Such detection problems require a formal definition of meme, or unit of information that can spread from person to person through the social network. Once a meme is identified, supervised learning methods can be applied to classify different types of communication. The appropriate granularity of a meme, however, is hardly captured from existing entities such as tags and keywords. Here we present a framework for the novel task of detecting memes by clustering messages from large streams of social data. We evaluate various similarity measures that leverage content, metadata, network features, and their combinations. We also explore the idea of pre-clustering on the basis of existing entities. A systematic evaluation is carried out using a manually curated dataset as ground truth. Our analysis shows that pre-clustering and a combination of heterogeneous features yield the best trade-off between number of clusters and their quality, demonstrating that a simple combination based on pairwise maximization of similarity is as effective as a non-trivial optimization of parameters. Our approach is fully automatic, unsupervised, and scalable for real-time detection of memes in streaming data.Comment: Proceedings of the 2013 IEEE/ACM International Conference on Advances in Social Networks Analysis and Mining (ASONAM'13), 201

Transcription Factor-DNA Binding Via Machine Learning Ensembles

We present ensemble methods in a machine learning (ML) framework combining predictions from five known motif/binding site exploration algorithms. For a given TF the ensemble starts with position weight matrices (PWM's) for the motif, collected from the component algorithms. Using dimension reduction, we identify significant PWM-based subspaces for analysis. Within each subspace a machine classifier is built for identifying the TF's gene (promoter) targets (Problem 1). These PWM-based subspaces form an ML-based sequence analysis tool. Problem 2 (finding binding motifs) is solved by agglomerating k-mer (string) feature PWM-based subspaces that stand out in identifying gene targets. We approach Problem 3 (binding sites) with a novel machine learning approach that uses promoter string features and ML importance scores in a classification algorithm locating binding sites across the genome. For target gene identification this method improves performance (measured by the F1 score) by about 10 percentage points over the (a) motif scanning method and (b) the coexpression-based association method. Top motif outperformed 5 component algorithms as well as two other common algorithms (BEST and DEME). For identifying individual binding sites on a benchmark cross species database (Tompa et al., 2005) we match the best performer without much human intervention. It also improved the performance on mammalian TFs. The ensemble can integrate orthogonal information from different weak learners (potentially using entirely different types of features) into a machine learner that can perform consistently better for more TFs. The TF gene target identification component (problem 1 above) is useful in constructing a transcriptional regulatory network from known TF-target associations. The ensemble is easily extendable to include more tools as well as future PWM-based information.Comment: 33 page