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PhenoImageShare: an image annotation and query infrastructure
BACKGROUND: High throughput imaging is now available to many groups and it is possible to generate a large quantity of high quality images quickly. Managing this data, consistently annotating it, or making it available to the community are all challenges that come with these methods. RESULTS: PhenoI...
Autores principales: | , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2016
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4896029/ https://www.ncbi.nlm.nih.gov/pubmed/27267125 http://dx.doi.org/10.1186/s13326-016-0072-2 |
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author | Adebayo, Solomon McLeod, Kenneth Tudose, Ilinca Osumi-Sutherland, David Burdett, Tony Baldock, Richard Burger, Albert Parkinson, Helen |
author_facet | Adebayo, Solomon McLeod, Kenneth Tudose, Ilinca Osumi-Sutherland, David Burdett, Tony Baldock, Richard Burger, Albert Parkinson, Helen |
author_sort | Adebayo, Solomon |
collection | PubMed |
description | BACKGROUND: High throughput imaging is now available to many groups and it is possible to generate a large quantity of high quality images quickly. Managing this data, consistently annotating it, or making it available to the community are all challenges that come with these methods. RESULTS: PhenoImageShare provides an ontology-enabled lightweight image data query, annotation service and a single point of access backed by a Solr server for programmatic access to an integrated image collection enabling improved community access. PhenoImageShare also provides an easy to use online image annotation tool with functionality to draw regions of interest on images and to annotate them with terms from an autosuggest-enabled ontology-lookup widget. The provenance of each image, and annotation, is kept and links to original resources are provided. The semantic and intuitive search interface is species and imaging technology neutral. PhenoImageShare now provides access to annotation for over 100,000 images for 2 species. CONCLUSION: The PhenoImageShare platform provides underlying infrastructure for both programmatic access and user-facing tools for biologists enabling the query and annotation of federated images. PhenoImageShare is accessible online at http://www.phenoimageshare.org. |
format | Online Article Text |
id | pubmed-4896029 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2016 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-48960292016-06-08 PhenoImageShare: an image annotation and query infrastructure Adebayo, Solomon McLeod, Kenneth Tudose, Ilinca Osumi-Sutherland, David Burdett, Tony Baldock, Richard Burger, Albert Parkinson, Helen J Biomed Semantics Software BACKGROUND: High throughput imaging is now available to many groups and it is possible to generate a large quantity of high quality images quickly. Managing this data, consistently annotating it, or making it available to the community are all challenges that come with these methods. RESULTS: PhenoImageShare provides an ontology-enabled lightweight image data query, annotation service and a single point of access backed by a Solr server for programmatic access to an integrated image collection enabling improved community access. PhenoImageShare also provides an easy to use online image annotation tool with functionality to draw regions of interest on images and to annotate them with terms from an autosuggest-enabled ontology-lookup widget. The provenance of each image, and annotation, is kept and links to original resources are provided. The semantic and intuitive search interface is species and imaging technology neutral. PhenoImageShare now provides access to annotation for over 100,000 images for 2 species. CONCLUSION: The PhenoImageShare platform provides underlying infrastructure for both programmatic access and user-facing tools for biologists enabling the query and annotation of federated images. PhenoImageShare is accessible online at http://www.phenoimageshare.org. BioMed Central 2016-06-07 /pmc/articles/PMC4896029/ /pubmed/27267125 http://dx.doi.org/10.1186/s13326-016-0072-2 Text en © Adebayo et al. 2016 Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver(http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. |
spellingShingle | Software Adebayo, Solomon McLeod, Kenneth Tudose, Ilinca Osumi-Sutherland, David Burdett, Tony Baldock, Richard Burger, Albert Parkinson, Helen PhenoImageShare: an image annotation and query infrastructure |
title | PhenoImageShare: an image annotation and query infrastructure |
title_full | PhenoImageShare: an image annotation and query infrastructure |
title_fullStr | PhenoImageShare: an image annotation and query infrastructure |
title_full_unstemmed | PhenoImageShare: an image annotation and query infrastructure |
title_short | PhenoImageShare: an image annotation and query infrastructure |
title_sort | phenoimageshare: an image annotation and query infrastructure |
topic | Software |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4896029/ https://www.ncbi.nlm.nih.gov/pubmed/27267125 http://dx.doi.org/10.1186/s13326-016-0072-2 |
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