The neurological disease ontology

Journal of Biomedical Semantics

Volumn 4, Issue 1, 2013, Pages

  Jensen, Mark ^a   Cox, Alexander P ^a   Chaudhry, Naveed ^b   Ng, Marcus ^b   Sule, Donat ^b   Duncan, William ^a   Ray, Patrick ^a   Weinstock Guttman, Bianca ^b   Smith, Barry ^a,b   Ruttenberg, Alan ^a   Szigeti, Kinga ^b   Diehl, Alexander D ^b  

^a UNIVERSITY AT BUFFALO   (United States)

^b UNIVERSITY AT BUFFALO   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 84926389895     PISSN: None     EISSN: 20411480     Source Type: Journal    
DOI: 10.1186/2041-1480-4-42     Document Type: Article

References (40)

1. Merritt HH, Rowland LP: Merritt's Neurology. 10th edition. Philadelphia: Lippincott Williams & Wilkins; 2000.
2. Ropper AH, Adams RD, Victor M, Brown RH, Victor M: Adams and Victor's Principles of Neurology. 8th edition. New York: McGraw-Hill Medical Pub. Division; 2005.
3. Bug WJ, Ascoli GA, Grethe JS, Gupta A, Fennema-Notestine C, Laird AR, Larson SD, Rubin D, Shepherd GM, Turner JA, Martone ME: The NIFSTD and BIRNLex vocabularies: building comprehensive ontologies for neuroscience. Neuroinformatics 2008, 6:175-194.
4. Cornet R, de Keizer N: Forty years of SNOMED: a literature review. BMC Med Inform Decis Mak 2008,8(Suppl 1):S2.
5. Medical Subject Headings (MeSH. http://www.ncbi.nlm.nih.gov/mesh
6. International Statistical Classification of Diseases and Related Health Problems 10th Revision (ICD-10). http://apps.who.int/classifications/icd10/browse/2010/en
7. Schriml LM, Arze C, Nadendla S, Chang YW, Mazaitis M, Felix V, Feng G, Kibbe WA: Disease Ontology: a backbone for disease semantic integration. Nucleic Acids Res 2012, 40:D940-D946.
8. Bodenreider O: Biomedical ontologies in action: role in knowledge management, data integration and decision support. IMIA Yearbook 2008, 3:67-79.
9. Smith B, Ashburner M, Rosse C, Bard J, Bug W, Ceusters W, Goldberg LJ, Eilbeck K, Ireland A, Mungall CJ, et al.: The OBO Foundry: coordinated evolution of ontologies to support biomedical data integration. Nat Biotechnol 2007, 25:1251-1255.
10. Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, Cherry JM, Davis AP, Dolinski K, Dwight SS, Eppig JT, et al.: Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet 2000, 25:25-29.
11. Scheuermann RH, Ceusters W, Smith B: Toward an ontological treatment of disease and diagnosis. Summit on Translat Bioinforma 2009, 2009:116-120.
12. OGMS Google Code Page [ http://code.google.com/p/ogms ]
13. NIFSTD Ontology [ http://purl.org/nif/ontology/Dysfunction/NIF-Dysfunction.owl ]
14. Grenon P: BFO in a Nutshell: A Bi-categorial Axiomatization of BFO and Comparison with DOLCE. Leipzig: Institute for Formal Ontology and Medical Information Science (IFOMIS) at the Faculty of Medicine of the University of Leipzig; 2003.
15. Rosse C, Mejino JL Jr: A reference ontology for biomedical informatics: the Foundational Model of Anatomy. J Biomed Inform 2003, 36:478-500.
16. Natale DA, Arighi CN, Barker WC, Blake JA, Bult CJ, Caudy M, Drabkin HJ, D'Eustachio P, Evsikov AV, Huang H, et al.: The Protein Ontology: a structured representation of protein forms and complexes. Nucleic Acids Res 2011, 39:D539-D545.
17. Brinkman RR, Courtot M, Derom D, Fostel JM, He Y, Lord P, Malone J, Parkinson H, Peters B, Rocca-Serra P, et al.: Modeling biomedical experimental processes with OBI. J Biomed Semant 2010,1(Suppl 1):S7.
18. Smith B, Ceusters W: Ontological realism: a methodology for coordinated evolution of scientific ontologies. Appl Ontol 2010, 5:139-188.
19. Noy N, Tudorache T, Nyulas C, Musen M: The ontology life cycle: integrated tools for editing, publishing, peer review, and evolution of ontologies. AMIA Ann Symp Proc 2010, 2010:552-556.
20. Hitzler P, Parsia B: OWL 2 Web Ontology Language Primer. 2009.
21. BFO 2.0: Basic Formal Ontology 2.0 Reference [ http://purl.obolibrary.org/obo/bfo/Reference ]
22. Xiang Z, Courtot M, Brinkman RR, Ruttenberg A, He Y: OntoFox: web-based support for ontology reuse. BMC Res Notes 2010, 3:175.
23. Mungall C, Ruttenberg A, Osumi-Sutherland D: Taking shortcuts with OWL using safe macros. Nat Prec doi.org/10.1038/npre.2011.5292.2.
24. Meehan TF, Masci AM, Abdulla A, Cowell LG, Blake JA, Mungall CJ, Diehl AD: Logical development of the cell ontology. BMC Bioinformatics 2011, 12:6.
25. Contini C, Seraceni S, Cultrera R, Castellazzi M, Granieri E, Fainardi E: Chlamydophila pneumoniae infection and its role in neurological disorders. Interdiscip Perspect Infect Dis 2010, 2010:273573.
26. Crimins JL, Pooler A, Polydoro M, Luebke JI, Spires-Jones TL: The intersection of amyloid beta and tau in glutamatergic synaptic dysfunction and collapse in Alzheimer's disease. Ageing Res Rev 2013, 12:757-763.
27. Hardy J, Duff K, Hardy KG, Perez-Tur J, Hutton M: Genetic dissection of Alzheimer's disease and related dementias: amyloid and its relationship to tau. Nat Neurosci 1998, 1:355-358.
28. Courtot M, Brinkman RR, Ruttenberg A: Reporting adverse events: basis for a common representation. Proceedings of the 2nd International Conference on Biomedical Ontology (ICBO-2011), Buffalo, NY, USA, July, 26-30, 2011 CEUR Workshop Proceedings, http://CEUR-WS.org/Vol-833/paper60.pdf
29. Cowell LG, Smith B: Infectious disease ontology. In Infectious Disease Informatics. Edited by: Sintchenko V. New York: Springer; 2010:373-395.
30. Hastings J, Smith B, Ceusters W, Jensen M, Mulligan K: Representing mental functioning: ontologies for mental health and disease. In ICBO 2012: 3rd International Conference on Biomedical Ontology. Graz, Austria: University of Graz; 2012.
31. Hogan WR, Garimalla S, Tariq SA: Representing the reality underlying demographic data. Proceedings of the 2nd International Conference on Biomedical Ontology (ICBO-2011), Buffalo, NY, USA, July, 26-30, 2011 CEUR Workshop Proceedings, http://CEUR-WS.org/Vol-833/paper20.pdf
32. Ochs C, He Z, Perl Y, Arabandi S, Halper M, Geller J: Choosing the granularity of abstraction networks for orientation and quality assurance of the sleep domain ontology. In Proceedings of the 4th International Conference on Biomedical Ontology 2013, Montreal, Canada, July 7-12, 2013. CEUR Workshop Proceedings; 2013. http://CEUR-WS.org/Vol-1060/icbo2013_submission_23.pdf.
33. Sahoo SS, Zhang GQ, Lhatoo SD: Epilepsy informatics and an ontology-driven infrastructure for large database research and patient care in epilepsy. Epilepsia 2013, 54:1335-1341.
34. Imam FT, Larson SD, Bandrowski A, Grethe JS, Gupta A, Martone ME: Development and use of ontologies inside the neuroscience information framework: a practical approach. Front Genet 2012, 3:111.
35. Mabee PM, Ashburner M, Cronk Q, Gkoutos GV, Haendel M, Segerdell E, Mungall C, Westerfield M: Phenotype ontologies: the bridge between genomics and evolution. Trends Ecol Evol 2007, 22:345-350.
36. Osborne JD, Flatow J, Holko M, Lin SM, Kibbe WA, Zhu LJ, Danila MI, Feng G, Chisholm RL: Annotating the human genome with disease ontology. BMC Genomics 2009,10(Suppl 1):S6.
37. Barnett MH, Parratt JD, Pollard JD, Prineas JW: MS: is it one disease? Int MS J 2009, 16:57-65.
38. Cree BA: Diagnosis and differential diagnosis of multiple sclerosis. Continuum 2010, 16:19-36.
39. Jacobs LD, Wende KE, Brownscheidle CM, Apatoff B, Coyle PK, Goodman A, Gottesman MH, Granger CV, Greenberg SJ, Herbert J, et al.: A profile of multiple sclerosis: the New York State Multiple Sclerosis Consortium. Mult Scler 1999, 5:369-376.
40. Cox AP, Jensen M, Ruttenberg A, Szigeti K, Diehl AD: Measuring cognitive functions: hurdles in the development of the neuropsychological testing ontology. Proceedings of the 4th International Conference on Biomedical Ontology 2013, Montreal, Canada, July 7-12, 2013 CEUR Workshop Proceedings, http://CEUR-WS.org/Vol-1060/icbo2013_submission_46.pdf