Literature DB >> 18629139

Biomedical informatics and granularity.

Anand Kumar1, Barry Smith, Daniel D Novotny.   

Abstract

An explicit formal-ontological representation of entities existing at multiple levels of granularity is an urgent requirement for biomedical information processing. We discuss some fundamental principles which can form a basis for such a representation. We also comment on some of the implicit treatments of granularity in currently available ontologies and terminologies (GO, FMA, SNOMED CT).

Year:  2004        PMID： 18629139      PMCID： PMC2447428          DOI： 10.1002/cfg.429

Source DB:  PubMed          Journal:  Comp Funct Genomics        ISSN： 1531-6912


  4 in total

1.  A reference ontology for biomedical informatics: the Foundational Model of Anatomy.

Authors:  Cornelius Rosse; José L V Mejino
Journal:  J Biomed Inform       Date:  2003-12       Impact factor: 6.317

2.  The ontology of the gene ontology.

Authors:  Barry Smith; Jennifer Williams; Steffen Schulze-Kremer
Journal:  AMIA Annu Symp Proc       Date:  2003

3.  Representing complexity in part-whole relationships within the Foundational Model of Anatomy.

Authors:  José V Mejino; Augusto V Agoncillo; Kurt L Rickard; Cornelius Rosse
Journal:  AMIA Annu Symp Proc       Date:  2003

4.  The role of foundational relations in the alignment of biomedical ontologies.

Authors:  Barry Smith; Cornelius Rosse
Journal:  Stud Health Technol Inform       Date:  2004
  4 in total
  12 in total

1.  The RNA Ontology Consortium: an open invitation to the RNA community.

Authors:  Neocles B Leontis; Russ B Altman; Helen M Berman; Steven E Brenner; James W Brown; David R Engelke; Stephen C Harvey; Stephen R Holbrook; Fabrice Jossinet; Suzanna E Lewis; François Major; David H Mathews; Jane S Richardson; James R Williamson; Eric Westhof
Journal:  RNA       Date:  2006-02-16       Impact factor: 4.942

2.  A comparative analysis of the density of the SNOMED CT conceptual content for semantic harmonization.

Authors:  Zhe He; James Geller; Yan Chen
Journal:  Artif Intell Med       Date:  2015-04-02       Impact factor: 5.326

3.  The cloning of the cdk2 transcript and the localization of its expression during gametogenesis in the freshwater giant prawn, Macrobrachium rosenbergii.

Authors:  Jie Chen; Ping Liu; Zhen Li; Ying Chen; Gao-Feng Qiu
Journal:  Mol Biol Rep       Date:  2013-05-08       Impact factor: 2.316

4.  Towards a foundational representation of potential drug-drug interaction knowledge.

Authors:  Mathias Brochhausen; Jodi Schneider; Daniel Malone; Philip E Empey; William R Hogan; Richard D Boyce
Journal:  CEUR Workshop Proc       Date:  2014-10

5.  An ontological analysis of some biological ontologies.

Authors:  Briti Deb
Journal:  Front Genet       Date:  2012-11-26       Impact factor: 4.599

6.  Top-level categories of constitutively organized material entities--suggestions for a formal top-level ontology.

Authors:  Lars Vogt; Peter Grobe; Björn Quast; Thomas Bartolomaeus
Journal:  PLoS One       Date:  2011-04-21       Impact factor: 3.240

7.  Spatio-structural granularity of biological material entities.

Authors:  Lars Vogt
Journal:  BMC Bioinformatics       Date:  2010-05-28       Impact factor: 3.169

8.  Accommodating ontologies to biological reality--top-level categories of cumulative-constitutively organized material entities.

Authors:  Lars Vogt; Peter Grobe; Björn Quast; Thomas Bartolomaeus
Journal:  PLoS One       Date:  2012-01-09       Impact factor: 3.240

9.  Categorizing the Relationships between Structurally Congruent Concepts from Pairs of Terminologies for Semantic Harmonization.

Authors:  Zhe He; James Geller; Gai Elhanan
Journal:  AMIA Jt Summits Transl Sci Proc       Date:  2014-04-07

10.  Event extraction across multiple levels of biological organization.

Authors:  Sampo Pyysalo; Tomoko Ohta; Makoto Miwa; Han-Cheol Cho; Jun'ichi Tsujii; Sophia Ananiadou
Journal:  Bioinformatics       Date:  2012-09-15       Impact factor: 6.937
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