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Author: D'Souza, Jennifer × DDC: 020 × Subject: Konferenzschrift ×

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Now showing 1 - 4 of 4
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    Toward Representing Research Contributions in Scholarly Knowledge Graphs Using Knowledge Graph Cells
    (New York City, NY : Association for Computing Machinery, 2020) Vogt, Lars; D'Souza, Jennifer; Stocker, Markus; Auer, Sören
    There is currently a gap between the natural language expression of scholarly publications and their structured semantic content modeling to enable intelligent content search. With the volume of research growing exponentially every year, a search feature operating over semantically structured content is compelling. Toward this end, in this work, we propose a novel semantic data model for modeling the contribution of scientific investigations. Our model, i.e. the Research Contribution Model (RCM), includes a schema of pertinent concepts highlighting six core information units, viz. Objective, Method, Activity, Agent, Material, and Result, on which the contribution hinges. It comprises bottom-up design considerations made from three scientific domains, viz. Medicine, Computer Science, and Agriculture, which we highlight as case studies. For its implementation in a knowledge graph application we introduce the idea of building blocks called Knowledge Graph Cells (KGC), which provide the following characteristics: (1) they limit the expressibility of ontologies to what is relevant in a knowledge graph regarding specific concepts on the theme of research contributions; (2) they are expressible via ABox and TBox expressions; (3) they enforce a certain level of data consistency by ensuring that a uniform modeling scheme is followed through rules and input controls; (4) they organize the knowledge graph into named graphs; (5) they provide information for the front end for displaying the knowledge graph in a human-readable form such as HTML pages; and (6) they can be seamlessly integrated into any existing publishing process thatsupports form-based input abstracting its semantic technicalities including RDF semantification from the user. Thus RCM joins the trend of existing work toward enhanced digitalization of scholarly publication enabled by an RDF semantification as a knowledge graph fostering the evolution of the scholarly publications beyond written text.
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    The STEM-ECR Dataset: Grounding Scientific Entity References in STEM Scholarly Content to Authoritative Encyclopedic and Lexicographic Sources
    (Paris : European Language Resources Association, 2020) D'Souza, Jennifer; Hoppe, Anett; Brack, Arthur; Jaradeh, Mohamad Yaser; Auer, Sören; Ewerth, Ralph
    We introduce the STEM (Science, Technology, Engineering, and Medicine) Dataset for Scientific Entity Extraction, Classification, and Resolution, version 1.0 (STEM-ECR v1.0). The STEM-ECR v1.0 dataset has been developed to provide a benchmark for the evaluation of scientific entity extraction, classification, and resolution tasks in a domain-independent fashion. It comprises abstracts in 10 STEM disciplines that were found to be the most prolific ones on a major publishing platform. We describe the creation of such a multidisciplinary corpus and highlight the obtained findings in terms of the following features: 1) a generic conceptual formalism for scientific entities in a multidisciplinary scientific context; 2) the feasibility of the domain-independent human annotation of scientific entities under such a generic formalism; 3) a performance benchmark obtainable for automatic extraction of multidisciplinary scientific entities using BERT-based neural models; 4) a delineated 3-step entity resolution procedure for human annotation of the scientific entities via encyclopedic entity linking and lexicographic word sense disambiguation; and 5) human evaluations of Babelfy returned encyclopedic links and lexicographic senses for our entities. Our findings cumulatively indicate that human annotation and automatic learning of multidisciplinary scientific concepts as well as their semantic disambiguation in a wide-ranging setting as STEM is reasonable.
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    Representing Semantified Biological Assays in the Open Research Knowledge Graph
    (Cham : Springer, 2020) Anteghini, Marco; D'Souza, Jennifer; Martins dos Santos, Vitor A.P.; Auer, Sören; Ishita, Emi; Pang, Natalie Lee San; Zhou, Lihong
    In the biotechnology and biomedical domains, recent text mining efforts advocate for machine-interpretable, and preferably, semantified, documentation formats of laboratory processes. This includes wet-lab protocols, (in)organic materials synthesis reactions, genetic manipulations and procedures for faster computer-mediated analysis and predictions. Herein, we present our work on the representation of semantified bioassays in the Open Research Knowledge Graph (ORKG). In particular, we describe a semantification system work-in-progress to generate, automatically and quickly, the critical semantified bioassay data mass needed to foster a consistent user audience to adopt the ORKG for recording their bioassays and facilitate the organisation of research, according to FAIR principles.
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    Domain-Independent Extraction of Scientific Concepts from Research Articles
    (Cham : Springer, 2020) Brack, Arthur; D'Souza, Jennifer; Hoppe, Anett; Auer, Sören; Ewerth, Ralph; Jose, Joemon M.; Yilmaz, Emine; Magalhães, João; Castells, Pablo; Ferro, Nicola; Silva, Mário J.; Martins, Flávio
    We examine the novel task of domain-independent scientific concept extraction from abstracts of scholarly articles and present two contributions. First, we suggest a set of generic scientific concepts that have been identified in a systematic annotation process. This set of concepts is utilised to annotate a corpus of scientific abstracts from 10 domains of Science, Technology and Medicine at the phrasal level in a joint effort with domain experts. The resulting dataset is used in a set of benchmark experiments to (a) provide baseline performance for this task, (b) examine the transferability of concepts between domains. Second, we present a state-of-the-art deep learning baseline. Further, we propose the active learning strategy for an optimal selection of instances from among the various domains in our data. The experimental results show that (1) a substantial agreement is achievable by non-experts after consultation with domain experts, (2) the baseline system achieves a fairly high F1 score, (3) active learning enables us to nearly halve the amount of required training data.