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Volumn 7, Issue 1, 2011, Pages

Benchmarking ontologies: Bigger or better?

Author keywords

[No Author keywords available]

Indexed keywords

DATA MINING; METADATA; THESAURI;

EID: 79551510490     PISSN: 1553734X     EISSN: 15537358     Source Type: Journal    
DOI: 10.1371/journal.pcbi.1001055     Document Type: Article
Times cited : (22)

References (78)
  • 1
    • 0034069495 scopus 로고    scopus 로고
    • Gene ontology: Tool for the unification of biology. The Gene Ontology Consortium
    • Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, et al. (2000) Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet 25: 25-29.
    • (2000) Nat Genet , vol.25 , pp. 25-29
    • Ashburner, M.1    Ball, C.A.2    Blake, J.A.3    Botstein, D.4    Butler, H.5
  • 2
    • 49949102960 scopus 로고
    • Lesniewski S, Srzednicki JTJ, Stachniak Z, Dordrecht/Boston: Kluwer Academic
    • Lesniewski S, Srzednicki JTJ, Stachniak Z, eds (1988) S. Lesniewski's lecture notes in logic. Dordrecht/Boston: Kluwer Academic.
    • (1988) S. Lesniewski's Lecture Notes In Logic
  • 3
    • 0003015874 scopus 로고
    • A framework for representing knowledge
    • In: Winston P.H., ed., New York: McGraw-Hill
    • Minsky, M (1975) A framework for representing knowledge. In: Winston P.H., ed. The Psychology of Computer Vision. New York: McGraw-Hill. pp 211-277.
    • (1975) The Psychology of Computer Vision , pp. 211-277
    • Minsky, M.1
  • 5
    • 78249235739 scopus 로고    scopus 로고
    • The Mammalian Phenotype Ontology: Enabling robust annotation and comparative analysis
    • Smith CL, Eppig JT (2009) The Mammalian Phenotype Ontology: enabling robust annotation and comparative analysis. Wiley Interdiscip Rev Syst Biol Med 1: 390-399.
    • (2009) Wiley Interdiscip Rev Syst Biol Med , vol.1 , pp. 390-399
    • Smith, C.L.1    Eppig, J.T.2
  • 8
    • 0034040680 scopus 로고    scopus 로고
    • An ontology for biological function based on molecular interactions
    • Karp PD (2000) An ontology for biological function based on molecular interactions. Bioinformatics 16: 269-285.
    • (2000) Bioinformatics , vol.16 , pp. 269-285
    • Karp, P.D.1
  • 9
    • 62749189218 scopus 로고    scopus 로고
    • SNOMED reaching its adolescence: Ontologists' and logicians' health check
    • Schulz S, Suntisrivaraporn B, Baader F, Boeker M (2009) SNOMED reaching its adolescence: ontologists' and logicians' health check. Int J Med Inform 78(Suppl 1): S86-94.
    • (2009) Int J Med Inform , vol.78 , Issue.SUPPL. 1
    • Schulz, S.1    Suntisrivaraporn, B.2    Baader, F.3    Boeker, M.4
  • 10
    • 58549098885 scopus 로고    scopus 로고
    • Inventory, differentiation, and proportional diversity: A consistent terminology for quantifying species diversity
    • Jurasinski G, Retzer V, Beierkuhnlein C (2009) Inventory, differentiation, and proportional diversity: a consistent terminology for quantifying species diversity. Oecologia 159: 15-26.
    • (2009) Oecologia , vol.159 , pp. 15-26
    • Jurasinski, G.1    Retzer, V.2    Beierkuhnlein, C.3
  • 11
    • 33645505338 scopus 로고    scopus 로고
    • Microparadigms: Chains of collective reasoning in publications about molecular interactions
    • Rzhetsky A, Iossifov I, Loh JM, White KP (2006) Microparadigms: chains of collective reasoning in publications about molecular interactions. Proc Natl Acad Sci U S A 103: 4940-4945.
    • (2006) Proc Natl Acad Sci U S A , vol.103 , pp. 4940-4945
    • Rzhetsky, A.1    Iossifov, I.2    Loh, J.M.3    White, K.P.4
  • 12
    • 68249112927 scopus 로고    scopus 로고
    • Requirements-oriented methodology for evaluating ontologies
    • Yu J, Thom JA, Tam A (2009) Requirements-oriented methodology for evaluating ontologies. Inform Syst 34: 766-791.
    • (2009) Inform Syst , vol.34 , pp. 766-791
    • Yu, J.1    Thom, J.A.2    Tam, A.3
  • 14
    • 0030409989 scopus 로고    scopus 로고
    • Towards a framework to verify knowledge sharing technology
    • Gomez-Perez A (1996) Towards a framework to verify knowledge sharing technology. Expert Syst Appl 11: 519-529.
    • (1996) Expert Syst Appl , vol.11 , pp. 519-529
    • Gomez-Perez, A.1
  • 15
    • 2342535080 scopus 로고    scopus 로고
    • An ontology of randomized controlled trials for evidence-based practice: Content specification and evaluation using the competency decomposition method
    • Sim I, Olasov B, Carini S (2004) An ontology of randomized controlled trials for evidence-based practice: content specification and evaluation using the competency decomposition method. J Biomed Inform 37: 108-119.
    • (2004) J Biomed Inform , vol.37 , pp. 108-119
    • Sim, I.1    Olasov, B.2    Carini, S.3
  • 16
    • 65349169138 scopus 로고    scopus 로고
    • Iterative evaluation of the Health Level 7-Logical Observation Identifiers Names and Codes Clinical Document Ontology for representing clinical document names: A case report
    • Hyun S, Shapiro JS, Melton G, Schlegel C, Stetson PD, et al. (2009) Iterative evaluation of the Health Level 7-Logical Observation Identifiers Names and Codes Clinical Document Ontology for representing clinical document names: a case report. J Am Med Inform Assoc 16: 395-399.
    • (2009) J Am Med Inform Assoc , vol.16 , pp. 395-399
    • Hyun, S.1    Shapiro, J.S.2    Melton, G.3    Schlegel, C.4    Stetson, P.D.5
  • 17
    • 44649088357 scopus 로고    scopus 로고
    • Monitoring the evolutionary aspect of the Gene Ontology to enhance predictability and usability
    • Park JC, Kim TE, Park J (2008) Monitoring the evolutionary aspect of the Gene Ontology to enhance predictability and usability. BMC Bioinformatics 9(Suppl.): S3.
    • (2008) BMC Bioinformatics , vol.9 , Issue.SUPPL.
    • Park, J.C.1    Kim, T.E.2    Park, J.3
  • 18
    • 76749096006 scopus 로고    scopus 로고
    • Evaluating ontologies: Towards a cognitive measure of quality
    • Evermann J, Fang J (2010) Evaluating ontologies: Towards a cognitive measure of quality. Inf Syst 35: 391-403.
    • (2010) Inf Syst , vol.35 , pp. 391-403
    • Evermann, J.1    Fang, J.2
  • 20
    • 22944432541 scopus 로고    scopus 로고
    • Ontology enrichment evaluation
    • Faatz A, Steinmetz R (2004) Ontology enrichment evaluation. Lect Notes Comput Sc 3257: 497-498.
    • (2004) Lect Notes Comput Sc , vol.3257 , pp. 497-498
    • Faatz, A.1    Steinmetz, R.2
  • 22
    • 28044452224 scopus 로고    scopus 로고
    • Learning domain ontologies for semantic Web service descriptions
    • Sabou M, Wroe C, Goble C, Stuckenschmidt H (2005) Learning domain ontologies for semantic Web service descriptions. J Web Semant 3: 340-365.
    • (2005) J Web Semant , vol.3 , pp. 340-365
    • Sabou, M.1    Wroe, C.2    Goble, C.3    Stuckenschmidt, H.4
  • 25
    • 31144459206 scopus 로고    scopus 로고
    • Learning Concept Hierarchies from Text Corpora using Formal Concept Anaylsis
    • Cimiano P, Hotho A, Staab S (2005) Learning Concept Hierarchies from Text Corpora using Formal Concept Anaylsis. J Artif Intell Res 24: 305-339.
    • (2005) J Artif Intell Res , vol.24 , pp. 305-339
    • Cimiano, P.1    Hotho, A.2    Staab, S.3
  • 26
    • 33845386307 scopus 로고    scopus 로고
    • On How to Perform a Gold Standard Based Evaluation of Ontology Learning. In Proceedings of the 5th International Semantic Web Conference (ISWC'06)
    • Dellschaft K, Staab S (2006) On How to Perform a Gold Standard Based Evaluation of Ontology Learning. In Proceedings of the 5th International Semantic Web Conference (ISWC'06). Springer. pp 228-241.
    • (2006) Springer , pp. 228-241
    • Dellschaft, K.1    Staab, S.2
  • 27
    • 33847207586 scopus 로고    scopus 로고
    • Functional annotation of genes using hierarchical text categorization
    • Information and Knowledge for Biology Detroit, MI
    • Kiritchenko S, Matwin S, Famili AF (2005) Functional annotation of genes using hierarchical text categorization. In: Proceedings of BioLINK SIG: Linking Literature, Information and Knowledge for Biology Detroit, MI.
    • (2005) Proceedings of BioLINK SIG: Linking Literature
    • Kiritchenko, S.1    Matwin, S.2    Famili, A.F.3
  • 28
    • 33744499195 scopus 로고    scopus 로고
    • A categorization approach to automated ontological function annotation
    • Verspoor K, Cohn J, Mniszewski S, Joslyn C (2006) A categorization approach to automated ontological function annotation. Protein Sci 15: 1544-1549.
    • (2006) Protein Sci , vol.15 , pp. 1544-1549
    • Verspoor, K.1    Cohn, J.2    Mniszewski, S.3    Joslyn, C.4
  • 32
    • 0141755289 scopus 로고    scopus 로고
    • The usable ontology: An environment for building and assessing a domain ontology. Sardinia, Italia, 2002
    • Missikoff M, Navigli R, Velardi P (2002) The usable ontology: An environment for building and assessing a domain ontology. Sardinia, Italia, 2002: In: International Semantic Web Conference (ISWC).
    • (2002) International Semantic Web Conference (ISWC)
    • Missikoff, M.1    Navigli, R.2    Velardi, P.3
  • 33
    • 33646235851 scopus 로고    scopus 로고
    • From concepts to clinical reality: An essay on the benchmarking of biomedical terminologies
    • Smith B (2006) From concepts to clinical reality: an essay on the benchmarking of biomedical terminologies. J Biomed Inform 39: 288-298.
    • (2006) J Biomed Inform , vol.39 , pp. 288-298
    • Smith, B.1
  • 34
    • 34748903457 scopus 로고    scopus 로고
    • A realism-based approach to the evolution of biomedical ontologies
    • Ceusters W, Smith B (2006) A realism-based approach to the evolution of biomedical ontologies. AMIA Annu Symp Proc. pp 121-125.
    • (2006) AMIA Annu Symp Proc , pp. 121-125
    • Ceusters, W.1    Smith, B.2
  • 35
    • 22944440839 scopus 로고    scopus 로고
    • Learning domain ontologies from document warehouses and dedicated web sites
    • Navigli R, Velardi P (2004) Learning domain ontologies from document warehouses and dedicated web sites. Comput Linguist 30: 151-179.
    • (2004) Comput Linguist , vol.30 , pp. 151-179
    • Navigli, R.1    Velardi, P.2
  • 36
    • 85050418426 scopus 로고    scopus 로고
    • Ontology learning from text: Methods, evaluation and applications
    • Brewster C (2006) Ontology learning from text: Methods, evaluation and applications. Comput Linguist 32: 569-572.
    • (2006) Comput Linguist , vol.32 , pp. 569-572
    • Brewster, C.1
  • 38
    • 84868630561 scopus 로고    scopus 로고
    • User-centred ontology learning for knowledge management
    • Brewster C, Ciravegna F, Wilks Y (2002) User-centred ontology learning for knowledge management. Lect Notes Comp Sc 2553: 203-207.
    • (2002) Lect Notes Comp Sc , vol.2553 , pp. 203-207
    • Brewster, C.1    Ciravegna, F.2    Wilks, Y.3
  • 40
    • 33646834101 scopus 로고    scopus 로고
    • Law and order: Assessing and enforcing compliance with ontological modeling principles in the Foundational Model of Anatomy
    • Zhang S, Bodenreider O (2006) Law and order: assessing and enforcing compliance with ontological modeling principles in the Foundational Model of Anatomy. Comput Biol Med 36: 674-693.
    • (2006) Comput Biol Med , vol.36 , pp. 674-693
    • Zhang, S.1    Bodenreider, O.2
  • 41
    • 66349110368 scopus 로고    scopus 로고
    • Ontology quality assurance through analysis of term transformations
    • Verspoor K, Dvorkin D, Cohen KB, Hunter L (2009) Ontology quality assurance through analysis of term transformations. Bioinformatics 25: 177-184.
    • (2009) Bioinformatics , vol.25 , pp. 177-184
    • Verspoor, K.1    Dvorkin, D.2    Cohen, K.B.3    Hunter, L.4
  • 43
    • 0012257635 scopus 로고    scopus 로고
    • Evaluating ontological decisions with OntoClean
    • Guarino N, Welty CA (2002) Evaluating ontological decisions with OntoClean. Commun ACM 45: 61-65.
    • (2002) Commun ACM , vol.45 , pp. 61-65
    • Guarino, N.1    Welty, C.A.2
  • 46
    • 11144249847 scopus 로고    scopus 로고
    • The foundational model of anatomy: A template for the symbolic representation of multi-scale physiological functions
    • Cook DL, Mejino JL, Rosse C (2004) The foundational model of anatomy: a template for the symbolic representation of multi-scale physiological functions. Conf Proc IEEE Eng Med Biol Soc 7: 5415-5418.
    • (2004) Conf Proc IEEE Eng Med Biol Soc , vol.7 , pp. 5415-5418
    • Cook, D.L.1    Mejino, J.L.2    Rosse, C.3
  • 47
    • 68149099653 scopus 로고
    • American Public Health Association, Lansing Mich. R. Smith print
    • American Public Health Association. (1899) The Bertillon classification of causes of death. Lansing Mich. R. Smith print.
    • (1899) The Bertillon Classification of Causes of Death
  • 49
    • 0033927616 scopus 로고    scopus 로고
    • Medical Subject Headings (MeSH)
    • Lipscomb CE (2000) Medical Subject Headings (MeSH). Bull Med Libr Assoc 88: 265-266.
    • (2000) Bull Med Libr Assoc , vol.88 , pp. 265-266
    • Lipscomb, C.E.1
  • 50
    • 11144232766 scopus 로고
    • Medical subject headings
    • Rogers FB (1963) Medical subject headings. Bull Med Libr Assoc 51: 114-116.
    • (1963) Bull Med Libr Assoc , vol.51 , pp. 114-116
    • Rogers, F.B.1
  • 51
    • 0031613190 scopus 로고    scopus 로고
    • Making the conceptual connections: The Unified Medical Language System (UMLS) after a decade of research and development
    • McCray AT, Miller RA (1998) Making the conceptual connections: the Unified Medical Language System (UMLS) after a decade of research and development. J Am Med Inform Assoc 5: 129-130.
    • (1998) J Am Med Inform Assoc , vol.5 , pp. 129-130
    • McCray, A.T.1    Miller, R.A.2
  • 52
    • 73949154410 scopus 로고    scopus 로고
    • Issues in mapping LOINC laboratory tests to SNOMED CT
    • Bodenreider O (2008) Issues in mapping LOINC laboratory tests to SNOMED CT. AMIA Annu Symp Proc. pp 51-55.
    • (2008) AMIA Annu Symp Proc , pp. 51-55
    • Bodenreider, O.1
  • 53
    • 33646245424 scopus 로고    scopus 로고
    • Conceptualizing the world: Lessons from history
    • McCray AT (2006) Conceptualizing the world: lessons from history. J Biomed Inform 39: 267-273.
    • (2006) J Biomed Inform , vol.39 , pp. 267-273
    • McCray, A.T.1
  • 55
    • 0033587669 scopus 로고    scopus 로고
    • Empirical derivation of an electronic clinically useful problem statement system
    • Brown SH, Miller RA, Camp HN, Guise DA, Walker HK (1999) Empirical derivation of an electronic clinically useful problem statement system. Ann Intern Med 131: 117-126.
    • (1999) Ann Intern Med , vol.131 , pp. 117-126
    • Brown, S.H.1    Miller, R.A.2    Camp, H.N.3    Guise, D.A.4    Walker, H.K.5
  • 56
    • 54949148775 scopus 로고    scopus 로고
    • Forty years of SNOMED: A literature review
    • Cornet R, de Keizer N (2008) Forty years of SNOMED: a literature review. BMC Med Inform Decis Mak 8(Suppl 1): S2.
    • (2008) BMC Med Inform Decis Mak , vol.8 , Issue.SUPPL. 1
    • Cornet, R.1    de Keizer, N.2
  • 57
    • 77955287813 scopus 로고    scopus 로고
    • An overview of MetaMap: Historical perspective and recent advances
    • Aronson AR, Lang FM (2010) An overview of MetaMap: historical perspective and recent advances. J Am Med Inform Assoc 17: 229-236.
    • (2010) J Am Med Inform Assoc , vol.17 , pp. 229-236
    • Aronson, A.R.1    Lang, F.M.2
  • 58
    • 52649147589 scopus 로고    scopus 로고
    • Nominalization and alternations in biomedical language
    • Cohen KB, Palmer M, Hunter L (2008) Nominalization and alternations in biomedical language. PLoS One 3: e3158.
    • (2008) PLoS One , vol.3
    • Cohen, K.B.1    Palmer, M.2    Hunter, L.3
  • 59
    • 0035752429 scopus 로고    scopus 로고
    • Effective mapping of biomedical text to the UMLS Metathesaurus: The MetaMap program
    • Aronson AR (2001) Effective mapping of biomedical text to the UMLS Metathesaurus: the MetaMap program. Proc AMIA Symp. pp 17-21.
    • (2001) Proc AMIA Symp , pp. 17-21
    • Aronson, A.R.1
  • 61
    • 0031035631 scopus 로고    scopus 로고
    • Defining the UMLS Metathesaurus
    • Walden V (1996) Defining the UMLS Metathesaurus. J AHIMA 68: 38.
    • (1996) J AHIMA , vol.68 , pp. 38
    • Walden, V.1
  • 62
    • 0026381734 scopus 로고
    • Extending a natural language parser with UMLS knowledge
    • McCray AT (1991) Extending a natural language parser with UMLS knowledge. Proc Annu Symp Comput Appl Med Care. pp 194-198.
    • (1991) Proc Annu Symp Comput Appl Med Care , pp. 194-198
    • McCray, A.T.1
  • 68
    • 0000679216 scopus 로고
    • Distributional structure
    • Harris Z (1954) Distributional structure. Word 10: 146-162.
    • (1954) Word , vol.10 , pp. 146-162
    • Harris, Z.1
  • 69
    • 0007186571 scopus 로고
    • A synopsis of linguistic theory 1930-1955
    • Oxford: Philological Society
    • Firth JR (1957) A synopsis of linguistic theory 1930-1955. In: Studies in Linguistic Analysis: Oxford: Philological Society. pp 1-32.
    • (1957) Studies In Linguistic Analysis , pp. 1-32
    • Firth, J.R.1
  • 70
    • 84930563890 scopus 로고
    • Co-occurrences of antonymous adjectives and their contexts
    • Justeson JS, Katz SM (1991) Co-occurrences of antonymous adjectives and their contexts. Comput Linguist 17: 1-19.
    • (1991) Comput Linguist , vol.17 , pp. 1-19
    • Justeson, J.S.1    Katz, S.M.2
  • 72
    • 0007561464 scopus 로고
    • Laurence Urdang NL ed. Grand Central Publishing
    • Rodale JI (1986) The Synonym Finder; Laurence Urdang NL, ed. Grand Central Publishing.
    • (1986) The Synonym Finder
    • Rodale, J.I.1
  • 78
    • 0001701917 scopus 로고
    • WordNet: An online lexical database
    • Miller G (1990) WordNet: an online lexical database. Int J Lexicogr 3: 235-312.
    • (1990) Int J Lexicogr , vol.3 , pp. 235-312
    • Miller, G.1


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