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Items: 1 to 20 of 118

1.

Toward an ontology-based framework for clinical research databases.

Kong YM, Dahlke C, Xiang Q, Qian Y, Karp D, Scheuermann RH.

J Biomed Inform. 2011 Feb;44(1):48-58. doi: 10.1016/j.jbi.2010.05.001. Epub 2010 May 10.

2.

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

Vogt L, Grobe P, Quast B, Bartolomaeus T.

PLoS One. 2012;7(1):e30004. doi: 10.1371/journal.pone.0030004. Epub 2012 Jan 9.

3.

Formal ontology for natural language processing and the integration of biomedical databases.

Simon J, Dos Santos M, Fielding J, Smith B.

Int J Med Inform. 2006 Mar-Apr;75(3-4):224-31. Epub 2005 Sep 8.

PMID:
16153885
4.

ONTOFUSION: ontology-based integration of genomic and clinical databases.

Pérez-Rey D, Maojo V, García-Remesal M, Alonso-Calvo R, Billhardt H, Martin-Sánchez F, Sousa A.

Comput Biol Med. 2006 Jul-Aug;36(7-8):712-30. Epub 2005 Sep 6.

PMID:
16144697
5.

Computational framework to support integration of biomolecular and clinical data within a translational approach.

Miyoshi NS, Pinheiro DG, Silva WA Jr, Felipe JC.

BMC Bioinformatics. 2013 Jun 6;14:180. doi: 10.1186/1471-2105-14-180.

6.

NanoParticle Ontology for cancer nanotechnology research.

Thomas DG, Pappu RV, Baker NA.

J Biomed Inform. 2011 Feb;44(1):59-74. doi: 10.1016/j.jbi.2010.03.001. Epub 2010 Mar 6.

7.

Semantic web for integrated network analysis in biomedicine.

Chen H, Ding L, Wu Z, Yu T, Dhanapalan L, Chen JY.

Brief Bioinform. 2009 Mar;10(2):177-92. doi: 10.1093/bib/bbp002.

8.

Using an integrated ontology and information model for querying and reasoning about phenotypes: The case of autism.

Tu SW, Tennakoon L, O'Connor M, Shankar R, Das A.

AMIA Annu Symp Proc. 2008 Nov 6:727-31.

9.

A gross anatomy ontology for hymenoptera.

Yoder MJ, Mikó I, Seltmann KC, Bertone MA, Deans AR.

PLoS One. 2010 Dec 29;5(12):e15991. doi: 10.1371/journal.pone.0015991.

10.

The ontology of biological sequences.

Hoehndorf R, Kelso J, Herre H.

BMC Bioinformatics. 2009 Nov 18;10:377. doi: 10.1186/1471-2105-10-377.

11.

IDOMAL: an ontology for malaria.

Topalis P, Mitraka E, Bujila I, Deligianni E, Dialynas E, Siden-Kiamos I, Troye-Blomberg M, Louis C.

Malar J. 2010 Aug 10;9:230. doi: 10.1186/1475-2875-9-230.

12.

Granularity issues in the alignment of upper ontologies.

Schulz S, Boeker M, Stenzhorn H, Niggemann J.

Methods Inf Med. 2009;48(2):184-9. doi: 10.3414/ME9221. Epub 2009 Feb 18.

PMID:
19283317
13.

A top-level ontology of functions and its application in the Open Biomedical Ontologies.

Burek P, Hoehndorf R, Loebe F, Visagie J, Herre H, Kelso J.

Bioinformatics. 2006 Jul 15;22(14):e66-73.

14.

Applying database technology to clinical and basic research bioinformatics projects.

Nadeau TP, Sullivan KA, Teorey TJ, Feldman EL.

J Integr Neurosci. 2003 Dec;2(2):201-17.

PMID:
15011271
15.

Survey-based naming conventions for use in OBO Foundry ontology development.

Schober D, Smith B, Lewis SE, Kusnierczyk W, Lomax J, Mungall C, Taylor CF, Rocca-Serra P, Sansone SA.

BMC Bioinformatics. 2009 Apr 27;10:125. doi: 10.1186/1471-2105-10-125.

16.

Towards a top-domain ontology for linking biomedical ontologies.

Stenzhorn H, Beisswanger E, Schulz S.

Stud Health Technol Inform. 2007;129(Pt 2):1225-9.

PMID:
17911910
17.

The Ontology for Biomedical Investigations.

Bandrowski A, Brinkman R, Brochhausen M, Brush MH, Bug B, Chibucos MC, Clancy K, Courtot M, Derom D, Dumontier M, Fan L, Fostel J, Fragoso G, Gibson F, Gonzalez-Beltran A, Haendel MA, He Y, Heiskanen M, Hernandez-Boussard T, Jensen M, Lin Y, Lister AL, Lord P, Malone J, Manduchi E, McGee M, Morrison N, Overton JA, Parkinson H, Peters B, Rocca-Serra P, Ruttenberg A, Sansone SA, Scheuermann RH, Schober D, Smith B, Soldatova LN, Stoeckert CJ Jr, Taylor CF, Torniai C, Turner JA, Vita R, Whetzel PL, Zheng J.

PLoS One. 2016 Apr 29;11(4):e0154556. doi: 10.1371/journal.pone.0154556. eCollection 2016.

18.

Building a bioinformatics ontology using OIL.

Stevens R, Goble C, Horrocks I, Bechhofer S.

IEEE Trans Inf Technol Biomed. 2002 Jun;6(2):135-41.

PMID:
12075668
19.

The ACGT Master Ontology and its applications--towards an ontology-driven cancer research and management system.

Brochhausen M, Spear AD, Cocos C, Weiler G, Martín L, Anguita A, Stenzhorn H, Daskalaki E, Schera F, Schwarz U, Sfakianakis S, Kiefer S, Dörr M, Graf N, Tsiknakis M.

J Biomed Inform. 2011 Feb;44(1):8-25. doi: 10.1016/j.jbi.2010.04.008. Epub 2010 May 11. Review.

20.

Modeling sample variables with an Experimental Factor Ontology.

Malone J, Holloway E, Adamusiak T, Kapushesky M, Zheng J, Kolesnikov N, Zhukova A, Brazma A, Parkinson H.

Bioinformatics. 2010 Apr 15;26(8):1112-8. doi: 10.1093/bioinformatics/btq099. Epub 2010 Mar 3.

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