Using controlled language to query atlas space

Kenneth McLeod, Bill Hill, Christopher Armit, Solomon Adebayo, Richard Baldock, Albert Burger

Research output: Contribution to journalConference article

Abstract

Specifying regions of interest to search 3D anatomical space can be difficult. Ontology-based queries are often imprecise and return extra (unwanted) data. Drawing regions of interest in graphical 3D representations of a model organism in principle allows for high precision, but user interfaces can be awkward to use and time consuming. In this poster we promote the use of spatial descriptions as an alternative approach. Spatial descriptions take advantage of existing ontological spatial information, such as in anatomy ontologies and spatial relations ontologies, e.g. BSPO, on the one side and the spatial information embedded in voxel-based representations of anatomy and other spatio-temporal data, e.g. in-situ gene expression patterns, on the other.

Original languageEnglish
Pages (from-to)197-198
Number of pages2
JournalCEUR Workshop Proceedings
Volume1546
Publication statusPublished - 2015
Event8th International Conference on Semantic Web Applications and Tools for Life Sciences 2015 - Cambridge, United Kingdom
Duration: 7 Dec 201510 Dec 2015

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Ontology
Gene expression
User interfaces

Keywords

  • Biomed-ical images
  • Biomedical atlases
  • Spatial ontologies
  • Spatial reasoning

ASJC Scopus subject areas

  • Computer Science(all)

Cite this

McLeod, K., Hill, B., Armit, C., Adebayo, S., Baldock, R., & Burger, A. (2015). Using controlled language to query atlas space. CEUR Workshop Proceedings, 1546, 197-198.
McLeod, Kenneth ; Hill, Bill ; Armit, Christopher ; Adebayo, Solomon ; Baldock, Richard ; Burger, Albert. / Using controlled language to query atlas space. In: CEUR Workshop Proceedings. 2015 ; Vol. 1546. pp. 197-198.
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McLeod, K, Hill, B, Armit, C, Adebayo, S, Baldock, R & Burger, A 2015, 'Using controlled language to query atlas space', CEUR Workshop Proceedings, vol. 1546, pp. 197-198.

Using controlled language to query atlas space. / McLeod, Kenneth; Hill, Bill; Armit, Christopher; Adebayo, Solomon; Baldock, Richard; Burger, Albert.

In: CEUR Workshop Proceedings, Vol. 1546, 2015, p. 197-198.

Research output: Contribution to journalConference article

TY - JOUR

T1 - Using controlled language to query atlas space

AU - McLeod, Kenneth

AU - Hill, Bill

AU - Armit, Christopher

AU - Adebayo, Solomon

AU - Baldock, Richard

AU - Burger, Albert

PY - 2015

Y1 - 2015

N2 - Specifying regions of interest to search 3D anatomical space can be difficult. Ontology-based queries are often imprecise and return extra (unwanted) data. Drawing regions of interest in graphical 3D representations of a model organism in principle allows for high precision, but user interfaces can be awkward to use and time consuming. In this poster we promote the use of spatial descriptions as an alternative approach. Spatial descriptions take advantage of existing ontological spatial information, such as in anatomy ontologies and spatial relations ontologies, e.g. BSPO, on the one side and the spatial information embedded in voxel-based representations of anatomy and other spatio-temporal data, e.g. in-situ gene expression patterns, on the other.

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KW - Biomedical atlases

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McLeod K, Hill B, Armit C, Adebayo S, Baldock R, Burger A. Using controlled language to query atlas space. CEUR Workshop Proceedings. 2015;1546:197-198.