Developing an application ontology for biomedical resource annotation and retrieval: Challenges and lessons learned

Carlo Torniai, Matthew Brush, Nicole Vasilevsky, Erik Segerdell, Melanie Wilson, Tenille Johnson, Karen Corday, Christopher Shaffer, Melissa Haendel

Research output: Chapter in Book/Report/Conference proceedingConference contribution

4 Citations (Scopus)

Abstract

The eagle-i project has been developing a semantic search portal for biomedical research resources. A unique feature of eagle-i is that the data collection and search tools are completely driven by ontologies. This has been a source of challenges and opportunities regarding use of biomedical ontologies in real-world applications. In this paper, we address our approach and lessons learned for balancing practical project requirements for design and implementation of an ontology driven application, with a desire to conform to best practices for biomedical ontology development.

Original languageEnglish (US)
Title of host publicationCEUR Workshop Proceedings
Pages101-108
Number of pages8
Volume833
StatePublished - 2011
Event2nd International Conference on Biomedical Ontology, ICBO 2011 - Buffalo, NY, United States
Duration: Jul 26 2011Jul 30 2011

Other

Other2nd International Conference on Biomedical Ontology, ICBO 2011
CountryUnited States
CityBuffalo, NY
Period7/26/117/30/11

Fingerprint

Ontology
Semantics

Keywords

  • Application ontology
  • Biomedical ontologies
  • Eagle-i
  • Ontology reuse
  • Resource

ASJC Scopus subject areas

  • Computer Science(all)

Cite this

Torniai, C., Brush, M., Vasilevsky, N., Segerdell, E., Wilson, M., Johnson, T., ... Haendel, M. (2011). Developing an application ontology for biomedical resource annotation and retrieval: Challenges and lessons learned. In CEUR Workshop Proceedings (Vol. 833, pp. 101-108)

Developing an application ontology for biomedical resource annotation and retrieval : Challenges and lessons learned. / Torniai, Carlo; Brush, Matthew; Vasilevsky, Nicole; Segerdell, Erik; Wilson, Melanie; Johnson, Tenille; Corday, Karen; Shaffer, Christopher; Haendel, Melissa.

CEUR Workshop Proceedings. Vol. 833 2011. p. 101-108.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Torniai, C, Brush, M, Vasilevsky, N, Segerdell, E, Wilson, M, Johnson, T, Corday, K, Shaffer, C & Haendel, M 2011, Developing an application ontology for biomedical resource annotation and retrieval: Challenges and lessons learned. in CEUR Workshop Proceedings. vol. 833, pp. 101-108, 2nd International Conference on Biomedical Ontology, ICBO 2011, Buffalo, NY, United States, 7/26/11.
Torniai C, Brush M, Vasilevsky N, Segerdell E, Wilson M, Johnson T et al. Developing an application ontology for biomedical resource annotation and retrieval: Challenges and lessons learned. In CEUR Workshop Proceedings. Vol. 833. 2011. p. 101-108
Torniai, Carlo ; Brush, Matthew ; Vasilevsky, Nicole ; Segerdell, Erik ; Wilson, Melanie ; Johnson, Tenille ; Corday, Karen ; Shaffer, Christopher ; Haendel, Melissa. / Developing an application ontology for biomedical resource annotation and retrieval : Challenges and lessons learned. CEUR Workshop Proceedings. Vol. 833 2011. pp. 101-108
@inproceedings{be503bcfb0d049afb8bf58514a0e845c,
title = "Developing an application ontology for biomedical resource annotation and retrieval: Challenges and lessons learned",
abstract = "The eagle-i project has been developing a semantic search portal for biomedical research resources. A unique feature of eagle-i is that the data collection and search tools are completely driven by ontologies. This has been a source of challenges and opportunities regarding use of biomedical ontologies in real-world applications. In this paper, we address our approach and lessons learned for balancing practical project requirements for design and implementation of an ontology driven application, with a desire to conform to best practices for biomedical ontology development.",
keywords = "Application ontology, Biomedical ontologies, Eagle-i, Ontology reuse, Resource",
author = "Carlo Torniai and Matthew Brush and Nicole Vasilevsky and Erik Segerdell and Melanie Wilson and Tenille Johnson and Karen Corday and Christopher Shaffer and Melissa Haendel",
year = "2011",
language = "English (US)",
volume = "833",
pages = "101--108",
booktitle = "CEUR Workshop Proceedings",

}

TY - GEN

T1 - Developing an application ontology for biomedical resource annotation and retrieval

T2 - Challenges and lessons learned

AU - Torniai, Carlo

AU - Brush, Matthew

AU - Vasilevsky, Nicole

AU - Segerdell, Erik

AU - Wilson, Melanie

AU - Johnson, Tenille

AU - Corday, Karen

AU - Shaffer, Christopher

AU - Haendel, Melissa

PY - 2011

Y1 - 2011

N2 - The eagle-i project has been developing a semantic search portal for biomedical research resources. A unique feature of eagle-i is that the data collection and search tools are completely driven by ontologies. This has been a source of challenges and opportunities regarding use of biomedical ontologies in real-world applications. In this paper, we address our approach and lessons learned for balancing practical project requirements for design and implementation of an ontology driven application, with a desire to conform to best practices for biomedical ontology development.

AB - The eagle-i project has been developing a semantic search portal for biomedical research resources. A unique feature of eagle-i is that the data collection and search tools are completely driven by ontologies. This has been a source of challenges and opportunities regarding use of biomedical ontologies in real-world applications. In this paper, we address our approach and lessons learned for balancing practical project requirements for design and implementation of an ontology driven application, with a desire to conform to best practices for biomedical ontology development.

KW - Application ontology

KW - Biomedical ontologies

KW - Eagle-i

KW - Ontology reuse

KW - Resource

UR - http://www.scopus.com/inward/record.url?scp=84891923912&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84891923912&partnerID=8YFLogxK

M3 - Conference contribution

AN - SCOPUS:84891923912

VL - 833

SP - 101

EP - 108

BT - CEUR Workshop Proceedings

ER -