Research on neural networks has gained significant momentum over the past few years. A plethora of neural networks is currently being trained on available data in research as well as in industry. Because training is a resource-intensive process and training data cannot always be made available to everyone, there has been a recent trend to attempt to re-use already-trained neural networks. As such, neural networks themselves have become research data. In this paper, we present the Neural Network Ontology, an ontology to make neural networks findable, accessible, interoperable and reusable as suggested by the well-established FAIR guiding principles for scientific data management and stewardship. We created the new FAIRnets Dataset that comprises about 2,000 neural networks openly accessible on the internet and uses the Neural Network Ontology to semantically annotate and represent the neural networks. For each of the neural networks in the FAIRnets Dataset, the relevant properties according to the Neural Network Ontology such as the description and the architecture are stored. Ultimately, the FAIRnets Dataset can be queried with a set of desired properties and responds with a set of neural networks that have these properties. We provide the service FAIRnets Search which is implemented on top of a SPARQL endpoint and allows for querying, searching and finding trained neural networks annotated with the Neural Network Ontology. The service is demonstrated by a browser-based frontend to the SPARQL endpoint.
In order to stimulate innovation during the collaborative process of new product and production development, especially to avoid duplicating existing techniques or infringing upon others’ patents and intellectual property rights, the collaborative team of research and development, and patent engineers must accurately identify relevant patent knowledge in a timely manner. This research develops a novel knowledge management approach using ontology-based artificial neural network (ANN) algorithm to automatically classify and search knowledge documents stored in huge online patent corpuses. This research focuses on developing a smart and semantic oriented classification and search from the sources of the most critical and well-structured knowledge publications, i.e. patents, to gain valuable and practical references for the collaborative networks of technology-centric product and production development teams. The research uses the domain ontology schema created using Protege and derives the semantic concept p... System interoperability is a well known issue, especially for heterogeneous information systems, where ontology- based representations may support automatic and user- transparent integration. In this paper we present X-SOM: an ontology mapping and integration tool. The contribution of our tool is a modular and extensible architecture that automatically combines several matching techniques by means of a neural network, performing also ontology debugging to avoid inconsistencies. Besides describing the tool components, we discuss the prototype implementation, which has been tested against the OAEI 2006 benchmark with promising results. With the emergence of the Semantic Web several domain ontologies were developed, which varied not only in their structure but also in the natural language used to define them. The lack of an integrated view of all web nodes and the existence of heterogeneous domain ontologies drive new challenges in the discovery of knowledge resources which are relevant to a user's request. New approaches have recently appeared for developing web intelligence and helping users avoid irrelevant results on the web. However, there remains some work to be done. This work makes a contribution by presenting an ANN-based ontology matching model for knowledge source discovery on the Semantic Web. Experimental results obtained on a real case study have shown that this model provides satisfactory responses. Achieving high match accuracy for a large variety of ontologies, considering a single matcher is often not sufficient for high match quality. Therefore, combining the corresponding weights for different semantic aspects, reflecting their different importance or contributions becomes unavoidable for ontology matching. Combining multiple measures into a single similarity metric has been traditionally solved using weights determined manually by an expert, or calculated through general methods e.g. average or sigmoid function, however this does not provide a flexible and self-configuring matching tool. In this paper, an intelligent combination using Artificial Neural Network ANN as a machine learning-based method to ascertain how to combine multiple similarity measures into a single aggregated metric with the final aim of improving the ontology alignment quality is proposed. XMap++ is applied to benchmark and anatomy tests at OAEI campaign 2012. Results show that neural network boosts the performance in most cases, and that the proposed novel approach is competitive with top-ranked system. Background Being formal, declarative knowledge representation models, ontologies help to address the problem of imprecise terminologies in biological and biomedical research. However, ontologies constructed under the auspices of the Open Biomedical Ontologies (OBO) group have exhibited a great deal of variety, because different parties can design ontologies according to their own conceptual views of the world. It is therefore becoming critical to align ontologies from different parties. During automated semi-automated alignment across biological ontologies, different semantic aspects, i.e., concept name, concept properties, and concept relationships, contribute in different degrees to alignment results. Therefore, a vector of weights must be assigned to these semantic aspects. It is not trivial to determine what those weights should be, and current methodologies depend a lot on human heuristics. Ontology mapping seeks to find semantic correspondences between similar elements of different ontologies. It is a key challenge to achieve semantic interoperability in building the Semantic Web. This paper proposes a new generic and adaptive ontology mapping approach, called the PRIOR+, based on propagation theory, information retrieval techniques and artificial intelligence. The approach consists of three major modules, i.e., the IR-based similarity generator, the adaptive similarity filter and weighted similarity aggregator, and the neural network based constraint satisfaction solver. The approach first measures both linguistic and structural similarity of ontologies in a vector space model, and then aggregates them using an adaptive method based on their harmonies, which is defined as an estimator of performance of similarity. Finally to improve mapping accuracy the interactive activation and competition neural network is activated, if necessary, to search for a solution that can satisfy ontology constraints. The experimental results show that harmony is a good estimator of f-measure; the harmony based adaptive aggregation outperforms other aggregation methods; neural network approach significantly boosts the performance in most cases. Our approach is competitive with top-ranked systems on benchmark tests at OAEI campaign 2007, and performs the best on real cases in OAEI benchmark tests. The Semantic Web is based on technologies that make the content of the Web machine-understandable. In that framework, ontological knowledge representation has become an important tool for the analysis and understanding of multimedia information. Because of the distributed nature of the Semantic Web however, ontologies describing similar fields of knowledge are being developed and the data coming from similar but non-identical ontologies can be combined only if a semantic mapping between them is first established. This has lead to the development of several ontology alignment tools. We propose an automatic ontology alignment method based on the recursive neural network model that uses ontology instances to learn similarities between ontology concepts. Recursive neural networks are an extension of common neural networks, designed to process efficiently structured data. Since ontologies are a structured data representation, the model is inherently suitable for use with ontologies. Background Single cell RNA sequencing (scRNA-seq) is applied to assay the individual transcriptomes of large numbers of cells. The gene expression at single-cell level provides an opportunity for better understanding of cell function and new discoveries in biomedical areas. To ensure that the single-cell based gene expression data are interpreted appropriately, it is crucial to develop new computational methods. Ontology matching, the task of determining relations that hold among terms of two different ontologies, is a key issue in the Semantic Web and other related fields. In order to compare the behaviour of different ontology matching systems, the Ontology Alignment Evaluation Initiative (OAEI) has established a periodical controlled evaluation that comes in a yearly event. We present here our participation in the 2008 initiative. Our schema-based alignment algorithm compares each pair of ontology terms by, firstly, extracting their ontological contexts up to a certain depth (enriched by using transitive entailment) and, secondly, combining different elementary ontology matching techniques (e.g., lexical distances and vector space modelling). Benchmark results show a very good behaviour in terms of precision, while preserving an acceptable recall. Based on our experience, we have also included some remarks about the nature of benchmark test cases that, in our opinion, could help improving the OAEI tests in the future. 