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Taxonomic Ontology Alignment - an Implementation

Carolina Howard Felicíssimo, Karin Koogan Breitman
2004 Workshop em Engenharia de Requisitos  
We propose a strategy for automatic alignment of ontologies, implemented by an ontology taxonomic alignment component -the CATO component.  ...  There is a consensus that ontologies will be this representation model. The information exchange process depends on our ability to engage two or more ontologies in conversation.  ...  An Implementation for the Proposed Ontology Alignment Strategy To validate the proposed strategy we built an ontology taxonomic alignment component called CATO.  ... 
dblp:conf/wer/FelicissimoB04 fatcat:dvl2j7v5gjhbfol4tydeakljp4

An Algebra of Qualitative Taxonomical Relations for Ontology Alignments [chapter]

Armen Inants, Jérôme Euzenat
2015 Lecture Notes in Computer Science  
Algebras of relations were shown useful in managing ontology alignments.  ...  They make it possible to aggregate alignments disjunctively or conjunctively and to propagate alignments within a network of ontologies.  ...  Non-taxonomical relations Algebras of relations for ontology alignment are not limited to taxonomical relations.  ... 
doi:10.1007/978-3-319-25007-6_15 fatcat:izggzb2gfvegbidnjjq2jlb3aq

Implementation of linked data in the life sciences at BioHackathon 2011

Kiyoko F Aoki-Kinoshita, Akira R Kinjo, Mizuki Morita, Yoshinobu Igarashi, Yi-an Chen, Yasumasa Shigemoto, Takatomo Fujisawa, Yukie Akune, Takeo Katoda, Anna Kokubu, Takaaki Mori, Mitsuteru Nakao (+4 others)
2015 Journal of Biomedical Semantics  
Although there is a high labor cost to define an ontology for data providers, the merit lies in the higher level of interoperability with data analysis and visualization software.  ...  Resource Description Framework (RDF) is the standard means of implementing Linked Data.  ...  They integrated SwissProt [10] protein annotations and taxonomic information with gene ontology annotations (GOA), ontologies provided by the open biological and biomedical ontologies (OBO) foundry and  ... 
doi:10.1186/2041-1480-6-3 pmid:25973165 pmcid:PMC4429360 fatcat:hrwxw6k25jfmpkbsdr22yn4a7y

Selected Information Management Resources for Implementing New Knowledge Environments: An Annotated Bibliography

Alex Garnett, Ray Siemens, Cara Leitch, Julie Melone
2012 Scholarly and Research Communication  
This kernel was built upon considerably by Alex Garnett, working consultatively with Cara Letich, Ray Siemens, and members of the Implementing New Knowledge Environment (INKE) and Public Knowledge Project  ...  Selected Information Management Resources for Implementing New Knowledge Environments: An Annotated Bibliography.  ...  Selected Information Management Resources for Implementing New Knowledge Environments: An Annotated Bibliography.  ... 
doi:10.22230/src.2012v3n1a52 fatcat:iug7tyszcbg3hdw4siqinlh5vy

CATO - A Lightweight Ontology Alignment Tool

Karin Koogan Breitman, Carolina Howard Felicíssimo, Marco A. Casanova
2005 International Conference on Advanced Information Systems Engineering  
In this paper, we propose a strategy and tool, CATO, that allow for totally automatic ontology alignment for the Semantic Web.  ...  Ontologies are becoming increasingly common in the World Wide Web as the building block for a future Semantic Web.  ...  Conclusions In this paper, we discussed the implementation of a software component responsible for the automatic taxonomical alignment of ontologies.  ... 
dblp:conf/caise/BreitmanFC05 fatcat:yi6e3vzdg5hdpp6npr735vt7zi

Boosting the Reasoning-Based Approach by Applying Structural Metrics for Ontology Alignment

2015 Journal of Information Processing Systems  
Ontology alignment is the solution to ensure semantic interoperability.  ...  We used the biblio test of the benchmark series and anatomy series of the Ontology Alignment Evaluation Initiative (OAEI) 2012 evaluation campaign to evaluate the performance of our approach.  ...  Then, an intra-taxonomic structural measure is applied. In addition, we implemented our approach by developing a software tool that allowed for the evaluation of our proposed method.  ... 
doi:10.3745/jips.02.0034 fatcat:y3fhidnowrb5ddqxjnti5tpxqu

Automatic Ontology-Based Model Evolution for Learning Changes in Dynamic Environments

Roua Jabla, Maha Khemaja, Félix Buendia, Sami Faiz
2021 Applied Sciences  
Therefore, this approach is illustrated using a proof-of-concept implementation that demonstrates the ontology-based model evolution at runtime.  ...  The main contribution of our presented approach is that it analyzes heterogeneous semi-structured input data for learning an ontology, and it makes use of the learned ontology to extend an initial ontology-based  ...  Ontology-based model evolution at 𝑡 in the alignment phase, an example of the main alignment findings. Figure 22 . 22 Figure 22.  ... 
doi:10.3390/app112210770 fatcat:2c3faqvvhrhzxfsfyviqwb37tm

OpenBiodiv-O: ontology of the OpenBiodiv knowledge management system

Viktor Senderov, Kiril Simov, Nico Franz, Pavel Stoev, Terry Catapano, Donat Agosti, Guido Sautter, Robert A. Morris, Lyubomir Penev
2018 Journal of Biomedical Semantics  
We bridge this gap by providing an ontology focusing on biological taxonomy.  ...  Our intent is to provide an ontology that fills the gaps between ontologies for biodiversity resources, such as DarwinCore-based ontologies, and semantic publishing ontologies, such as the SPAR Ontologies  ...  Thus, our aim is not to create an ontology capturing a fixed view of biological taxonomy, but to create an ontology of the taxonomic process.  ... 
doi:10.1186/s13326-017-0174-5 pmid:29347997 pmcid:PMC5774086 fatcat:2l6q5qyumzg7flvuqwwznp247a

Acquisition of Ontological Knowledge from Canonical Documents

Raphael M. Malyankar
2001 International Joint Conference on Artificial Intelligence  
Heuristics for resolving anomalies in ontologies generated from mixed sources are also described.  ...  This paper describes experiences with quasiautomated creation of a computational ontology for maritime information from a mixed collection of source material.  ...  SMART: Automated support for ontology merging and alignment. In Twelth Workshop on Knowledge Acquisition, Modeling, and Management, Banff, Canada, 1999. [Noy and Musen, 2000]  ... 
dblp:conf/ijcai/Malyankar01 fatcat:uzp3eutlsbeqdizmybgbi74kam

Microbial Taxonomy Ontology for Agriculturally Important Microorganisms (AMO) Coupled with Sequence Alignment Reinforcement Options

Chandan Kumar Deb, Saket Kumar Karn, Madhurima Das, Sudeep Marwaha
2018 International Journal of Current Microbiology and Applied Sciences  
A sequence alignment tool is also developed in the system for aligning the query sequence with the existing sequence in the ontology.  ...  It is only feasible through an efficient knowledge representation technique -Ontology.  ... 
doi:10.20546/ijcmas.2018.704.358 fatcat:phabwrvqejazvhqo6vkppcxtf4

EnTAP: Bringing Faster and Smarter Functional Annotation to Non-Model Eukaryotic Transcriptomes [article]

Alexander J Hart, Samuel Ginzburg, Muyang (Sam) Xu, Cera R Fisher, Nasim Rahmatpour, Jeffry B Mitton, Robin Paul, Jill L Wegrzyn
2018 bioRxiv   pre-print
The final annotation integrates across multiple databases and selects an optimal assignment from a combination of weighted metrics describing similarity search score, taxonomic relationship, and informativeness  ...  Downstream features include fast similarity search across three repositories, protein domain assignment, orthologous gene family assessment, and Gene Ontology term assignment.  ...  This database, resulting from the clustering of 2031 prokaryotic and eukaryotic genomes categorized into 107 taxonomic levels, provides an alternative means of Gene Ontology (GO), pathway, and protein  ... 
doi:10.1101/307868 fatcat:6zcwyval5beedlbwsb3j363tqi

Reuse of termino-ontological resources and text corpora for building a multilingual domain ontology: An application to Alzheimer's disease

Khadim Dramé, Gayo Diallo, Fleur Delva, Jean François Dartigues, Evelyne Mouillet, Roger Salamon, Fleur Mougin
2014 Journal of Biomedical Informatics  
The latter currently includes 5765 concepts linked by 7499 taxonomic relationships and 10,889 non-taxonomic relationships.  ...  enrichment through the alignment of French and English terms using parallel corpora and the integration of new concepts, (iv) refinement and validation of results by domain experts.  ...  Hence, aligning the resulting ontology with an upper level ontology like BFO as in [26] is an important perspective of our work.  ... 
doi:10.1016/j.jbi.2013.12.013 pmid:24382429 fatcat:offalcmdubfkhe5rrdi6rzfsfa

A Linguistic-ontological Support for Multilingual Legislative Drafting: the DALOS Project

Enrico Francesconi, Pier-Luigi Spinosa, Daniela Tiscornia
2007 International Conference on Artificial Intelligence and Law  
Coherence and alignment of the legislative language highly contribute to the quality of legislative processes, to the clarity of legislative texts and to their accessibility.  ...  Concepts at the ontological layer are linked by taxonomical (is_a) as well as object property relationships.  ...  In this context the use of an ontology is of primary importance.  ... 
dblp:conf/icail/FrancesconiST07 fatcat:g2st4uxkzre2hk5fgflweafmpm

Anomalies in ontologies with rules

Joachim Baumeister, Dietmar Seipel
2010 Journal of Web Semantics  
use of rules and ontological definitions.  ...  Likewise, the integration creates new challenges for the design process of such ontologies, but also existing evaluation methods have to cope with the extension of ontologies by rules.  ...  is an example for semantic checks of taxonomic decisions made in ontologies.  ... 
doi:10.1016/j.websem.2009.12.003 fatcat:xxq5nyesb5fybiefrfrbhptfvu

Anomalies in Ontologies with Rules

Joachim Baumeister, Dietmar Seipel
2010 Social Science Research Network  
use of rules and ontological definitions.  ...  Likewise, the integration creates new challenges for the design process of such ontologies, but also existing evaluation methods have to cope with the extension of ontologies by rules.  ...  is an example for semantic checks of taxonomic decisions made in ontologies.  ... 
doi:10.2139/ssrn.3199466 fatcat:onqotpvltvgtvjvw4bdltqpn4e
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