Stochastic Data Clustering

In 1961 Herbert Simon and Albert Ando published the theory behind the long-term behavior of a dynamical system that can be described by a nearly uncoupled matrix. Over the past fifty years this theory has been used in a variety of contexts, including queueing theory, brain organization, and ecology. In all these applications, the structure of the system is known and the point of interest is the various stages the system passes through on its way to some long-term equilibrium. This paper looks at this problem from the other direction. That is, we develop a technique for using the evolution of the system to tell us about its initial structure, and we use this technique to develop a new algorithm for data clustering.Comment: 23 page

User Review-Based Change File Localization for Mobile Applications

In the current mobile app development, novel and emerging DevOps practices (e.g., Continuous Delivery, Integration, and user feedback analysis) and tools are becoming more widespread. For instance, the integration of user feedback (provided in the form of user reviews) in the software release cycle represents a valuable asset for the maintenance and evolution of mobile apps. To fully make use of these assets, it is highly desirable for developers to establish semantic links between the user reviews and the software artefacts to be changed (e.g., source code and documentation), and thus to localize the potential files to change for addressing the user feedback. In this paper, we propose RISING (Review Integration via claSsification, clusterIng, and linkiNG), an automated approach to support the continuous integration of user feedback via classification, clustering, and linking of user reviews. RISING leverages domain-specific constraint information and semi-supervised learning to group user reviews into multiple fine-grained clusters concerning similar users' requests. Then, by combining the textual information from both commit messages and source code, it automatically localizes potential change files to accommodate the users' requests. Our empirical studies demonstrate that the proposed approach outperforms the state-of-the-art baseline work in terms of clustering and localization accuracy, and thus produces more reliable results.Comment: 15 pages, 3 figures, 8 table

Integrative analysis of the inter-tumoral heterogeneity of triple-negative breast cancer.

Triple-negative breast cancers (TNBC) lack estrogen and progesterone receptors and HER2 amplification, and are resistant to therapies that target these receptors. Tumors from TNBC patients are heterogeneous based on genetic variations, tumor histology, and clinical outcomes. We used high throughput genomic data for TNBC patients (n = 137) from TCGA to characterize inter-tumor heterogeneity. Similarity network fusion (SNF)-based integrative clustering combining gene expression, miRNA expression, and copy number variation, revealed three distinct patient clusters. Integrating multiple types of data resulted in more distinct clusters than analyses with a single datatype. Whereas most TNBCs are classified by PAM50 as basal subtype, one of the clusters was enriched in the non-basal PAM50 subtypes, exhibited more aggressive clinical features and had a distinctive signature of oncogenic mutations, miRNAs and expressed genes. Our analyses provide a new classification scheme for TNBC based on multiple omics datasets and provide insight into molecular features that underlie TNBC heterogeneity

Analysing Lexical Semantic Change with Contextualised Word Representations

This paper presents the first unsupervised approach to lexical semantic change that makes use of contextualised word representations. We propose a novel method that exploits the BERT neural language model to obtain representations of word usages, clusters these representations into usage types, and measures change along time with three proposed metrics. We create a new evaluation dataset and show that the model representations and the detected semantic shifts are positively correlated with human judgements. Our extensive qualitative analysis demonstrates that our method captures a variety of synchronic and diachronic linguistic phenomena. We expect our work to inspire further research in this direction.Comment: To appear in Proceedings of the 58th Annual Meeting of the Association for Computational Linguistics (ACL-2020