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641“…Furthermore, we show that our method can accurately predict genes that will be assigned a functional label that has no known annotations, based only on the ontology graph structure and genes associated with other labels, which further suggests that our method effectively utilizes the similarity between gene functions. …”
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642por Groza, Tudor, Köhler, Sebastian, Moldenhauer, Dawid, Vasilevsky, Nicole, Baynam, Gareth, Zemojtel, Tomasz, Schriml, Lynn Marie, Kibbe, Warren Alden, Schofield, Paul N., Beck, Tim, Vasant, Drashtti, Brookes, Anthony J., Zankl, Andreas, Washington, Nicole L., Mungall, Christopher J., Lewis, Suzanna E., Haendel, Melissa A., Parkinson, Helen, Robinson, Peter N.“…The Human Phenotype Ontology (HPO) is widely used in the rare disease community for differential diagnostics, phenotype-driven analysis of next-generation sequence-variation data, and translational research, but a comparable resource has not been available for common disease. …”
Publicado 2015
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643“…With the steady increase in the number of ontologies, automatic integration of ontologies is preferable over manual solutions in many applications. …”
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644“…Ontologies are widely used in biological and biomedical research. …”
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645“…Ontology Matching aims at identifying a set of semantic correspondences, called an alignment, between related ontologies. …”
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646“…These ontologies include different OWL/OWL 2 (Web Ontology Language) constructors. …”
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647por Cheung, Kei-Hoi, Keerthikumar, Shivakumar, Roncaglia, Paola, Subramanian, Sai Lakshmi, Roth, Matthew E., Samuel, Monisha, Anand, Sushma, Gangoda, Lahiru, Gould, Stephen, Alexander, Roger, Galas, David, Gerstein, Mark B., Hill, Andrew F., Kitchen, Robert R., Lötvall, Jan, Patel, Tushar, Procaccini, Dena C., Quesenberry, Peter, Rozowsky, Joel, Raffai, Robert L., Shypitsyna, Aleksandra, Su, Andrew I., Théry, Clotilde, Vickers, Kasey, Wauben, Marca H.M., Mathivanan, Suresh, Milosavljevic, Aleksandar, Laurent, Louise C.“…BACKGROUND: To address the lack of standard terminology to describe extracellular RNA (exRNA) data/metadata, we have launched an inter-community effort to extend the Gene Ontology (GO) with subcellular structure concepts relevant to the exRNA domain. …”
Publicado 2016
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648por Huntley, Rachael P., Sitnikov, Dmitry, Orlic-Milacic, Marija, Balakrishnan, Rama, D'Eustachio, Peter, Gillespie, Marc E., Howe, Doug, Kalea, Anastasia Z., Maegdefessel, Lars, Osumi-Sutherland, David, Petri, Victoria, Smith, Jennifer R., Van Auken, Kimberly, Wood, Valerie, Zampetaki, Anna, Mayr, Manuel, Lovering, Ruth C.“…The association of gene products with terms from the Gene Ontology is an effective method to analyze functional data, but until recently there has been no substantial effort dedicated to applying Gene Ontology terms to microRNAs. …”
Publicado 2016
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649por Read, Warren J., Demetriou, George, Nenadic, Goran, Ruddock, Noel, Stevens, Robert, Winter, Jerry“…AVAILABILITY: The BioHubKB can be found via http://biohub.cs.manchester.ac.uk/ontology/biohub-kb.owl.…”
Publicado 2016
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650por Foulger, R. E., Denny, P., Hardy, J., Martin, M. J., Sawford, T., Lovering, R. C.“…The Gene Ontology (GO) is widely recognised as the gold standard bioinformatics resource for summarizing functional knowledge of gene products in a consistent and computable, information-rich language. …”
Publicado 2016
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651“…To improve this situation, we developed an ontology of terms describing changes in models. The ontology can be used by scientists and within software to characterise model updates at the level of single changes. …”
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652“…This paper, focusing on constructing and querying a hepatitis ontology, aims to provide a framework for ontology-based medical services. …”
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653por Ben Abacha, Asma, Dos Reis, Julio Cesar, Mrabet, Yassine, Pruski, Cédric, Da Silveira, Marcos“…Human expertise is crucial for the validation of ontologies from a domain point-of-view. However, the growing number of ontologies and their fast evolution over time make manual validation challenging. …”
Publicado 2016
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654“…METHODS: We applied recent advances in the ontological understanding of the aboutness relation to the problem of diagnosis and disease as defined by the Ontology for General Medical Science. …”
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655por Verspoor, Karin, Oellrich, Anika, Collier, Nigel, Groza, Tudor, Rocca-Serra, Philippe, Soldatova, Larisa, Dumontier, Michel, Shah, Nigam“…The papers presented in this collection range from descriptions of software tools supporting ontology development and annotation of objects with ontology terms, to applications of text mining for structured relation extraction involving diseases and phenotypes, to detailed proposals for new ontologies and mapping of existing ontologies. …”
Publicado 2016
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656“…However, amuch needed and importanttask is to determine the functions of the newly identified protein motifs. The Gene Ontology (GO) project is an endeavor to annotate the function of genes or protein sequences with terms from a dynamic, controlled vocabulary and these annotations serve well as a knowledge base. …”
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657“…We have comprehensively mapped each metadata term in NeuroMorpho.Org to this formal ontology, explicitly resolving all ambiguities caused by synonymy and homonymy. …”
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658“…METHODS: The obesity ontology was developed according to the ‘Ontology Development 101’. …”
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659por Lin, Yu, Mehta, Saurabh, Küçük-McGinty, Hande, Turner, John Paul, Vidovic, Dusica, Forlin, Michele, Koleti, Amar, Nguyen, Dac-Trung, Jensen, Lars Juhl, Guha, Rajarshi, Mathias, Stephen L., Ursu, Oleg, Stathias, Vasileios, Duan, Jianbin, Nabizadeh, Nooshin, Chung, Caty, Mader, Christopher, Visser, Ubbo, Yang, Jeremy J., Bologa, Cristian G., Oprea, Tudor I., Schürer, Stephan C.“…A modular, hierarchical implementation facilitate ontology development and maintenance and makes use of various external ontologies, thus integrating the DTO into the ecosystem of biomedical ontologies. …”
Publicado 2017
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660“…BACKGROUND: There are many challenges associated with ontology building, as the process often touches on many different subject areas; it needs knowledge of the problem domain, an understanding of the ontology formalism, software in use and, sometimes, an understanding of the philosophical background. …”
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