A multi-dimensional terminological knowledge representation language - preliminary version

An extension of the concept description language {$\cal ALC$} used in {\sc kl-one}-like terminological reasoning is presented. The extension includes multi-modal operators that can either stand for the usual role quantifications or for modalities such as belief, time etc. The modal operators can be used at all levels of the concept terms, and they can be used to modify both concepts and roles. This is an instance of a new kind of combination of modal logics where the modal operators of one logic may operate directly on the operators of the other logic. This preliminary version is no longer available and has been replaced by MPI-I-95-2-005

Unsupervised Terminological Ontology Learning based on Hierarchical Topic Modeling

In this paper, we present hierarchical relationbased latent Dirichlet allocation (hrLDA), a data-driven hierarchical topic model for extracting terminological ontologies from a large number of heterogeneous documents. In contrast to traditional topic models, hrLDA relies on noun phrases instead of unigrams, considers syntax and document structures, and enriches topic hierarchies with topic relations. Through a series of experiments, we demonstrate the superiority of hrLDA over existing topic models, especially for building hierarchies. Furthermore, we illustrate the robustness of hrLDA in the settings of noisy data sets, which are likely to occur in many practical scenarios. Our ontology evaluation results show that ontologies extracted from hrLDA are very competitive with the ontologies created by domain experts

Biomedical ontology alignment: An approach based on representation learning

While representation learning techniques have shown great promise in application to a number of different NLP tasks, they have had little impact on the problem of ontology matching. Unlike past work that has focused on feature engineering, we present a novel representation learning approach that is tailored to the ontology matching task. Our approach is based on embedding ontological terms in a high-dimensional Euclidean space. This embedding is derived on the basis of a novel phrase retrofitting strategy through which semantic similarity information becomes inscribed onto fields of pre-trained word vectors. The resulting framework also incorporates a novel outlier detection mechanism based on a denoising autoencoder that is shown to improve performance. An ontology matching system derived using the proposed framework achieved an F-score of 94% on an alignment scenario involving the Adult Mouse Anatomical Dictionary and the Foundational Model of Anatomy ontology (FMA) as targets. This compares favorably with the best performing systems on the Ontology Alignment Evaluation Initiative anatomy challenge. We performed additional experiments on aligning FMA to NCI Thesaurus and to SNOMED CT based on a reference alignment extracted from the UMLS Metathesaurus. Our system obtained overall F-scores of 93.2% and 89.2% for these experiments, thus achieving state-of-the-art results

Using distributional similarity to organise biomedical terminology

We investigate an application of distributional similarity techniques to the problem of structural organisation of biomedical terminology. Our application domain is the relatively small GENIA corpus. Using terms that have been accurately marked-up by hand within the corpus, we consider the problem of automatically determining semantic proximity. Terminological units are dened for our purposes as normalised classes of individual terms. Syntactic analysis of the corpus data is carried out using the Pro3Gres parser and provides the data required to calculate distributional similarity using a variety of dierent measures. Evaluation is performed against a hand-crafted gold standard for this domain in the form of the GENIA ontology. We show that distributional similarity can be used to predict semantic type with a good degree of accuracy