1,720,969 research outputs found
Embeddings for Uberon and ILX lookup
No full textThis is an embedding set of terms in UBERON and ILX ontologies</p
BMSE Documentation and Tutorials
No full textBiosimulation Model Search Engine (BMSE) is a web-based search engine for
finding information in biosimulation models created using CellML and stored in
the Physiome Repository Model (PMR).
Types of information include variables, mathematical equations, constants,
components, models, images, and simulation results. This work uses Composite
Annotation Search Using BERT (CASBERT) to represent queries and entities in
biosimulation models (https://doi.org/10.1101/2022.11.22.517475).</p
Automatic Annotation of Query in Physiome Model Repository (PMR)
No full textThe Physiome Model Repository (PMR) is a collection of physiological and anatomical models written in XML based form. The PMR goal is to provide a robust platform for scientists in the biology-related domain such as bioengineering and biomedical so they can reuse, reproduce, collaborate, and exchange simulation experiments consistently and unambiguously. The stored models consist of elements of mathematical equations along with all variables, and description. Currently, a large number of elements has been annotated using ontology URIs and has been stored as RDF triples for easy management and retrieval. By using SPARQL, scientists are able to find relevant elements and use these for their works. However, the use of SPARQL in PMR needs sufficient knowledge about ontology URIs and elements needed which may cause difficulties. Therefore, we have developed an automatic annotation to map the user’s text query to ontology URIs. We have utilised textual information inside the PMR and ontology URIs' label, definition, and synonym from BioPortal to extract text-based features. We have also used the NLP parser to divide the query into candidate phrases. Utilising these features, we are able to annotate the candidate phrases and then select the final phrases with relatively high accuracy
SCKAN terms to PMR Models
No full textThis dataset consists a zip file containing four files. The files can be used to locate related PMR model in the Physiome Model Repository (PMR) with the given ontology terms available in SCKAN. The files are:sckan2pmr.json: is the main file, containing dictionaries of SCKAN terms to the PMR modelmetadata.json: containing metadata to create the dictionary, i.e. SCKAN version, indexer version, and setup for similarity measure</ul
Going Beyond Counting First Authors in Author Co-citation Analysis
Get PDFThe present study examines one of the fundamental aspects of author co-citation analysis (ACA) - the way co-citation
counts are defined. Co-citation counting provides the data on which all subsequent statistical analyses and mappings
are based, and we compare ACA results based on two different types of co-citation counting - the traditional type that
only counts the first one among a cited work's authors on the one hand and a non-traditional type that takes into
account the first 5 authors of a cited work on the other hand. Results indicate that the picture produced through this non-traditional author co-citation counting contains more coherent author groups and is therefore considerably clearer. However, this picture represents fewer specialties in the research field being studied than that produced through the traditional first-author co-citation counting when the same number of top-ranked authors is selected and analyzed. Reasons for these effects are discussed
Variations on the Author
Get PDF“Variations on the Author” discusses two of Eduardo Coutinho’s recent films (Um Dia na Vida, from 2010, and Últimas Conversas, posthumously released in 2015) and their contribution to the general question of documentary authorship. The director’s filmography is characterized by a consistent yet self-effacing form of authorial self-inscription: Coutinho often features as an interviewer that rather than express opinions propels discourses; an interviewer that is good at listening. This mode of self-inscription characterizes him as an author who is not expressive but who is nonetheless markedly present on the screen. In Um Dia na Vida, however, Coutinho is completely absent form the image, while Últimas Conversas, on the contrary, includes a confessional prologue that moves the director from the margins to the center of his films. This article examines the ways in which these works stand out in the filmography of a director who offers new insights into the notion of cinematic authorship
Appropriate Similarity Measures for Author Cocitation Analysis
Get PDFWe provide a number of new insights into the methodological discussion about author cocitation analysis. We first argue that the use of the Pearson correlation for measuring the similarity between authors’ cocitation profiles is not very satisfactory. We then discuss what kind of similarity measures may be used as an alternative to the Pearson correlation. We consider three similarity measures in particular. One is the well-known cosine. The other two similarity measures have not been used before in the bibliometric literature. Finally, we show by means of an example that our findings have a high practical relevance.information science;Pearson correlation;cosine;similarity measure;author cocitation analysis
Dispelling the Myths Behind First-author Citation Counts
Get PDFWe conducted a full-scale evaluative citation analysis study of scholars in the XML research field to explore just how different from each other author rankings resulting from different citation counting methods actually are, and to demonstrate the capability of emerging data and tools on the Web in supporting more realistic citation counting methods. Our results contest some common arguments for the continued
use of first-author citation counts in the evaluation of scholars, such as high correlations between author rankings by first-author citation counts and other citation
counting methods, and high costs of using more realistic citation counting methods that are not well-supported by the ISI databases. It is argued that increasingly available digital full text research papers make it possible for citation analysis studies to go beyond what the ISI databases have directly supported and to employ more
sophisticated methods
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