PhenoImageShare: An image annotation and query infrastructure

Albert Georg Burger, Richard Baldock, Solomon Adebayo, Ilinca Tudose, Kenneth McLeod, David Osumi-Sutherland, Helen Parkinson, Tony Burdett

Research output: Contribution to journalArticle

Abstract

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.
Original languageEnglish
Article number35
JournalJournal of Biomedical Semantics
Volume7
DOIs
Publication statusPublished - 7 Jun 2016

Fingerprint

Semantics
infrastructure
Ontology
image analysis
Technology
Imaging techniques
Facings
provenance
Image quality
biologists
Servers
Throughput
Data Curation
methodology

Keywords

  • Phenotype description
  • Infrastructure
  • semantic interoperability
  • image annotation
  • semantic annotation
  • genotype-phenotype associations

ASJC Scopus subject areas

  • Computer Science (miscellaneous)
  • Developmental Biology
  • Animal Science and Zoology

Cite this

Burger, Albert Georg ; Baldock, Richard ; Adebayo, Solomon ; Tudose, Ilinca ; McLeod, Kenneth ; Osumi-Sutherland, David ; Parkinson, Helen ; Burdett, Tony. / PhenoImageShare: An image annotation and query infrastructure. In: Journal of Biomedical Semantics. 2016 ; Vol. 7.
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Burger, AG, Baldock, R, Adebayo, S, Tudose, I, McLeod, K, Osumi-Sutherland, D, Parkinson, H & Burdett, T 2016, 'PhenoImageShare: An image annotation and query infrastructure', Journal of Biomedical Semantics, vol. 7, 35. https://doi.org/10.1186/s13326-016-0072-2

PhenoImageShare: An image annotation and query infrastructure. / Burger, Albert Georg; Baldock, Richard; Adebayo, Solomon; Tudose, Ilinca; McLeod, Kenneth; Osumi-Sutherland, David; Parkinson, Helen; Burdett, Tony.

In: Journal of Biomedical Semantics, Vol. 7, 35, 07.06.2016.

Research output: Contribution to journalArticle

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AU - Burger, Albert Georg

AU - Baldock, Richard

AU - Adebayo, Solomon

AU - Tudose, Ilinca

AU - McLeod, Kenneth

AU - Osumi-Sutherland, David

AU - Parkinson, Helen

AU - Burdett, Tony

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