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An open annotation ontology for science on web 3.0
2011
Journal of Biomedical Semantics
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Results: This paper presents Annotation Ontology (AO), an open ontology in OWL-DL for annotating scientific documents on the web. AO supports both human and algorithmic content annotation. ...
Conclusions: The Annotation Ontology meets critical requirements for an open, freely shareable model in OWL, of annotation metadata created against scientific documents on the Web. ...
We are most grateful for the financial support of these institutes and corporations. ...
doi:10.1186/2041-1480-2-s2-s4
pmid:21624159
pmcid:PMC3102893
fatcat:qksypoz7efd3fecj4cgfausmdi
Automatic OpenAPI to Bio.tools Conversion
[article]
2017
bioRxiv
pre-print
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This work introduces an interoperability layer between two approaches for FAIR annotation of web services: OpenAPI and bio.tools. ...
Computation has become a central component of life sciences research. Making computational services FAIR has had a strong interest from the life sciences community in the past 15 years. ...
Acknowledgments We thank ELIXIR-DK for supporting this project via a bio.tools student http://biotools.readthedocs.io/en/latest/studentships.html . ...
doi:10.1101/170274
fatcat:joggbcyqebejlpjxt3spxixkaq
OLS Client and OLS Dialog: Open Source Tools to Annotate Public Omics Datasets
2017
Proteomics
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Recently, the OLS framework has been completely redeveloped (version 3.0), including enhancements in the data model, like the added support for Web Ontology Language based ontologies, among many other ...
We here present the OLS Client as a free, open-source Java library to retrieve information from the new version of the OLS. ...
Web Ontology Language (OWL)-based ontologies, an increase in the number of ontologies covered, as well as multiple enhancements in its web and programmatic interfaces, and in the underlying backend. ...
doi:10.1002/pmic.201700244
pmid:28792687
pmcid:PMC5707441
fatcat:olhbz7l2hzeunbl64p4dpjwdza
FOCIH: Form-Based Ontology Creation and Information Harvesting
[chapter]
2009
Lecture Notes in Computer Science
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Thus, scaling ontology creation and population to the size of the web in an effort to create a web of data-which some see as Web 3.0-is prohibitive. ...
And we offer a way to semi-automatically harvest data from the current web of pages for a Web 3.0 ontology. ...
FOCIH provides for semi-automatically annotating information according to any view users want-thus opening a pathway to the envisioned Web 3.0. ...
doi:10.1007/978-3-642-04840-1_26
fatcat:zi35uea7h5hg3cqerzsohxzo6e
Social Software Approach To E-Learning 3.0
2013
Zenodo
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In the present paper, we-ll explore how social media tools provide an opportunity for new developments of the e-Learning in the context of managing personal knowledge. ...
Students- Survey of use of web technologies and social networking tools is presented. ...
**
Use
89%
82%
29%
TABLE V V STUDENTS' SURVEY OF WEB 3.0 TECHNOLOGIES Web 3.0
is having
a high
impact on
learning
Web
3.0
as
real
after
2015
Web 3.0-
barriers:
adoption of
learning ...
doi:10.5281/zenodo.1058809
fatcat:xygjf6lls5denmvxthz5pwf2xi
The EBI RDF platform: linked open data for the life sciences
2014
Bioinformatics
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Motivation: Resource description framework (RDF) is an emerging technology for describing, publishing and linking life science data. ...
The EBI RDF platform has been developed to meet an increasing demand to coordinate RDF activities across the institute and provides a new entry point to querying and exploring integrated resources available ...
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/ by-nc/3.0/), which permits non-commercial re-use ...
doi:10.1093/bioinformatics/btt765
pmid:24413672
pmcid:PMC3998127
fatcat:2jzyexnusfdippfn6kq6mnvxjq
Semantic mashup of biomedical data
2008
Journal of Biomedical Informatics
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Ted Shortliffe (Editor-in-Chief of JBI) for his editorial review and guidance. ...
Finally, we thank Janine Burch and Rachel Perry (at the JBI Editorial Offices) for coordinating the paper submission, review, and production process. ...
An ontology is designed for capturing knowledge for a complex personalized health care scenario. ...
doi:10.1016/j.jbi.2008.08.003
pmid:18703163
pmcid:PMC3742004
fatcat:utdd2zyj6zfklh5etnhe4gbwwq
Data management in Systems biology II - Outlook towards the semantic web
[article]
2009
arXiv
pre-print
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The problems existing today on the way to a true semantic web are pinpointed, different semantic web standards, tools and development frameworks are overlooked and an outlook towards artificial intelligence ...
It is presented how ontologies can be used for the semantic enrichment of data and how this can contribute to the vision of the semantic web to become true. ...
One could speak of such an intelligent web making use of semantic annotations as the web 5.0. ...
arXiv:0912.2822v1
fatcat:2sl6qr3f2ve57g55gzxd3v4tpy
Cognitive Approaches for the Semantic Web (Dagstuhl Seminar 12221)
2012
Dagstuhl Reports
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Cognitive aspects emerge as an essential ingredient for future work on knowledge acquisition, representation, reasoning, and interactions on the Semantic Web. ...
Essentially, the information stored on the Web is from and for humans. ...
Sheth, "An Ontological Approach to Focusing Attention and Enhancing Machine Perception on the Web," Applied Ontology, vol. 6(4), pp.345-376, 2011. ...
doi:10.4230/dagrep.2.5.93
dblp:journals/dagstuhl-reports/GentnerHHJK12
fatcat:xbh6owcklvcgplcllplbbgvuhe
Selected papers from the 13th Annual Bio-Ontologies Special Interest Group Meeting
2011
Journal of Biomedical Semantics
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of ontologies and natural language processing for an annotation framework, the generation of textual definitions, and the discovery of gene interaction networks. ...
and dissemination of knowledge in biomedicine and the life sciences. ...
This article has been published as part of Journal of Biomedical Semantics Volume 2 Supplement 2, 2011: Proceedings of the Bio-Ontologies Special Interest Group Meeting 2010. ...
doi:10.1186/2041-1480-2-s2-i1
pmid:21624154
pmcid:PMC3102888
fatcat:knxc7s6ckzao5jpyoho3bu6xqy
AISO: Annotation of Image Segments with Ontologies
2014
Journal of Biomedical Semantics
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The tool enables researchers and curators to delineate portions of an image into multiple highlighted segments and annotate them with an ontology-based controlled vocabulary. ...
Therefore, researchers and curators need a tool that can identify and demarcate features in an image plane and allow their annotation with semantically contextual ontology terms. ...
Stockey at Oregon State University, for their contribution of the paleo-botanical image and subsequent segmentation and annotation, as described in the Case Studies and Figure 3 . ...
doi:10.1186/2041-1480-5-50
pmid:25584184
pmcid:PMC4290088
fatcat:77xwkdwl7ragxbvkuj2xywyfja
ABCD 3.0 Ready to Use
2019
Biodiversity Information Science and Standards
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The XML elements are connected to their semantic concepts using the W3C SAWSDL (Semantic Annotation for Web Services Description Language and XML Schema) standard. ...
The new site is hosted on Github: https://github.com/tdwg/abcd/tree/gh-pages. ...
The XML elements are connected to their semantic concepts using the W3C SAWSDL (Semantic Annotation for Web Services Description Language and XML Schema) standard. ...
doi:10.3897/biss.3.37214
fatcat:avp6dpknsvf7lnvvnscrnq4jqa
Digital Scholarship and Open Science in Psychology and the Behavioral Sciences (Dagstuhl Perpectives Workshop 15302)
2016
Dagstuhl Reports
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as an integrative platform for e-Science. ...
This workshop addressed the problem of facilitating the construction of an integrative digital scholarship and open science infrastructure in psychology and the behavioral sciences by utilizing the Web ...
It is an open tool being engineered for an emerging W3C standard for web annotation. ...
doi:10.4230/dagrep.5.7.42
dblp:journals/dagstuhl-reports/CastroHSW15
fatcat:crbhfmhelzhlreiddnm5hxomve
DisGeNET-RDF: harnessing the innovative power of the Semantic Web to explore the genetic basis of diseases
[article]
2015
bioRxiv
pre-print
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Motivation: DisGeNET-RDF makes available knowledge on the genetic basis of human diseases in the Semantic Web (SW). ...
of a rich and fully interconnected Linked Open Data (LOD). ...
Remarkably, DisGeNET-RDF is integrated in the Open PHACTS Discovery Platform [7] , which is an application for drug discovery based on Semantic Web technology and RDF linked datasets. ...
doi:10.1101/032961
fatcat:tbssxfxubvbdth727hypyw6fou
HCLS 2.0/3.0: Health care and life sciences data mashup using Web 2.0/3.0
2008
Journal of Biomedical Informatics
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Web 2.0 has transformed the Web into an environment that provides richer user experiences by allowing for the combination of disparate information in a variety of data formats, the facilitation of interaction ...
We then describe Semantic Web, the mainstream Web 3.0 technology that enables more powerful data integration over the Web. ...
We gratefully acknowledge Mark Gerstein and Carole Goble for suggestions, comments, and views. ...
doi:10.1016/j.jbi.2008.04.001
pmid:18487092
pmcid:PMC2933816
fatcat:s7xyuohnv5bm7kzg36dgwy5jpq
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