It has been known that a combination of multiple kernels and addition of various resources are the best options for improving effectiveness of kernel-based PPI extraction methods. These supplements, however, involve extensive kernel adaptation and feature selection processes, which attenuate the original benefits of the kernel methods. This paper shows that we are able to achieve the best perfo...

Protein-protein interactions (PPIs) play a vital role in initiating infection in a number of pathogens. Identifying which interactions allow a pathogen to infect its host can help us to understand methods of pathogenesis and provide potential targets for therapeutics. Public resources for studying host-pathogen systems, in particular PPIs, are scarce. To facilitate the study of host-pathogen PP...

Relations between entities in text have been widely researched in the natural language processing and informationextraction communities. The region connecting a pair of entities (in a parsed sentence) is often used to construct kernels or feature vectors that can recognize and extract interesting relations. Such regions are useful, but they can also incorporate unnecessary distracting informati...

This paper presents an evaluation study of the Multiresolution Spectral Analysis (MRS) method which provides a higher temporal accuracy in the upper spectral region and a better frequency resolution in the lower spectral range. We showcase the importance of this tool by attempting an automatic transition zone detection and an automatic silence/sonorant/non-sonorant classification. Our approach ...

Since source code is the ultimate definition of the behavior of a software product, changes to source code become the critical factor in understanding behavioral changes and predicting faults. In studies on source code changes, text or syntactic approaches have been widely used. Textual analysis focuses on changed text fragments while syntactic analysis focuses on changed syntactic entities. Al...

Universal variational functionals of densities, first-order density matrices, and natural spin-orbitals are explicitly displayed for variational calculations of ground states of interacting electrons in atoms, molecules, and solids. In all cases, the functionals search for constrained minima. In particular, following Percus [Formula: see text] is identified as the universal functional of Hohenb...

The purpose of this paper is to present an algorithmic pipeline for melodic pattern detection in audio files. Our method follows a two-stage approach: first, vocal pitch sequences are extracted from the audio recordings by means of a predominant fundamental frequency estimation technique; second, instances of the patterns are detected directly in the pitch sequences by means of a dynamic progra...

Because of the importance of proteinprotein interaction (PPI) extraction from text, many corpora have been proposed with slightly differing definitions of proteins and PPI. Since no single corpus is large enough to saturate a machine learning system, it is necessary to learn from multiple different corpora. In this paper, we propose a solution to this challenge. We designed a rich feature vecto...

The automatized beat detection and localization have been the subject of multiple research in the field of music information retrieval. Most of the methods are based on onset detection. We propose an alternative approach: Our method is based on the “Forward-Backward segmentation”: the segments may be interpreted as attacks, decays, sustains and releases of notes. We process the segment boundari...