Davy Weissenbacher

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This paper gives an overview of the Caderige project. This project involves teams from different areas (biology, machine learning, natural language processing) in order to develop high-level analysis tools for extracting structured information from biological bibliographical databases, especially Medline. The paper gives an overview of the approach and(More)
The paper describes the ALVIS annotation format designed for the indexing of large collections of documents in topic-specific search engines. This paper is exemplified on the biological domain and on MedLine abstracts, as developing a specialized search engine for biologists is one of the ALVIS case studies. The ALVIS principle for linguistic annotations is(More)
The UK Education Evidence Portal (eep) provides a single, searchable, point of access to the contents of the websites of 33 organizations relating to education, with the aim of revolutionizing work practices for the education community. Use of the portal alleviates the need to spend time searching multiple resources to find relevant information. However,(More)
We present our supervised sentiment classification system which competed in SemEval-2015 Task 10B: Sentiment Classification in Twitter— Message Polarity Classification. Our system employs a Support Vector Machine classifier trained using a number of features including n-grams, dependency parses, synset expansions, word prior polarities, and embedding(More)
Given the limited success of medication in reversing the effects of Alzheimer's and other dementias, a lot of the neuroscience research has been focused on early detection, in order to slow the progress of the disease through different interventions. We propose a Natural Language Processing approach applied to descriptive writing to attempt to discriminate(More)
OBJECTIVE The metadata reflecting the location of the infected host (LOIH) of virus sequences in GenBank often lacks specificity. This work seeks to enhance this metadata by extracting more specific geographic information from related full-text articles and mapping them to their latitude/longitudes using knowledge derived from external geographical(More)
UNLABELLED Diseases caused by zoonotic viruses (viruses transmittable between humans and animals) are a major threat to public health throughout the world. By studying virus migration and mutation patterns, the field of phylogeography provides a valuable tool for improving their surveillance. A key component in phylogeographic analysis of zoonotic viruses(More)