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Items: 1 to 20 of 113

1.

Logical development of the cell ontology.

Meehan TF, Masci AM, Abdulla A, Cowell LG, Blake JA, Mungall CJ, Diehl AD.

BMC Bioinformatics. 2011 Jan 5;12:6. doi: 10.1186/1471-2105-12-6.

2.

An improved ontological representation of dendritic cells as a paradigm for all cell types.

Masci AM, Arighi CN, Diehl AD, Lieberman AE, Mungall C, Scheuermann RH, Smith B, Cowell LG.

BMC Bioinformatics. 2009 Feb 25;10:70. doi: 10.1186/1471-2105-10-70.

3.

Semi-automated ontology generation within OBO-Edit.

Wächter T, Schroeder M.

Bioinformatics. 2010 Jun 15;26(12):i88-96. doi: 10.1093/bioinformatics/btq188.

4.

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.

5.

Hematopoietic cell types: prototype for a revised cell ontology.

Diehl AD, Augustine AD, Blake JA, Cowell LG, Gold ES, Gondré-Lewis TA, Masci AM, Meehan TF, Morel PA, Nijnik A, Peters B, Pulendran B, Scheuermann RH, Yao QA, Zand MS, Mungall CJ.

J Biomed Inform. 2011 Feb;44(1):75-9. doi: 10.1016/j.jbi.2010.01.006. Epub 2010 Feb 1.

6.

Cross-product extensions of the Gene Ontology.

Mungall CJ, Bada M, Berardini TZ, Deegan J, Ireland A, Harris MA, Hill DP, Lomax J.

J Biomed Inform. 2011 Feb;44(1):80-6. doi: 10.1016/j.jbi.2010.02.002. Epub 2010 Feb 10.

7.

Relations as patterns: bridging the gap between OBO and OWL.

Hoehndorf R, Oellrich A, Dumontier M, Kelso J, Rebholz-Schuhmann D, Herre H.

BMC Bioinformatics. 2010 Aug 31;11:441. doi: 10.1186/1471-2105-11-441.

8.

The Cell Ontology 2016: enhanced content, modularization, and ontology interoperability.

Diehl AD, Meehan TF, Bradford YM, Brush MH, Dahdul WM, Dougall DS, He Y, Osumi-Sutherland D, Ruttenberg A, Sarntivijai S, Van Slyke CE, Vasilevsky NA, Haendel MA, Blake JA, Mungall CJ.

J Biomed Semantics. 2016 Jul 4;7(1):44. doi: 10.1186/s13326-016-0088-7.

9.

Identification of OBO nonalignments and its implications for OBO enrichment.

Bada M, Hunter L.

Bioinformatics. 2008 Jun 15;24(12):1448-55. doi: 10.1093/bioinformatics/btn194. Epub 2008 May 7.

10.

TGF-beta signaling proteins and the Protein Ontology.

Arighi CN, Liu H, Natale DA, Barker WC, Drabkin H, Blake JA, Smith B, Wu CH.

BMC Bioinformatics. 2009 May 6;10 Suppl 5:S3. doi: 10.1186/1471-2105-10-S5-S3.

11.

The Ontology Lookup Service, a lightweight cross-platform tool for controlled vocabulary queries.

Côté RG, Jones P, Apweiler R, Hermjakob H.

BMC Bioinformatics. 2006 Feb 28;7:97.

12.

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.

13.

Obol: integrating language and meaning in bio-ontologies.

Mungall CJ.

Comp Funct Genomics. 2004;5(6-7):509-20. doi: 10.1002/cfg.435.

14.

A network-theoretic approach for decompositional translation across Open Biological Ontologies.

Patel CO, Cimino JJ.

J Biomed Inform. 2010 Aug;43(4):608-12. doi: 10.1016/j.jbi.2010.01.007. Epub 2010 Feb 6.

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.

Improving ontologies by automatic reasoning and evaluation of logical definitions.

Köhler S, Bauer S, Mungall CJ, Carletti G, Smith CL, Schofield P, Gkoutos GV, Robinson PN.

BMC Bioinformatics. 2011 Oct 27;12:418. doi: 10.1186/1471-2105-12-418.

17.

Quality control for terms and definitions in ontologies and taxonomies.

Köhler J, Munn K, Rüegg A, Skusa A, Smith B.

BMC Bioinformatics. 2006 Apr 19;7:212.

18.

Biomedical ontologies: a functional perspective.

Rubin DL, Shah NH, Noy NF.

Brief Bioinform. 2008 Jan;9(1):75-90. Epub 2007 Dec 12. Review.

PMID:
18077472
19.

The Gene Ontology in 2010: extensions and refinements.

Gene Ontology Consortium.

Nucleic Acids Res. 2010 Jan;38(Database issue):D331-5. doi: 10.1093/nar/gkp1018. Epub 2009 Nov 17.

20.

OLS dialog: an open-source front end to the ontology lookup service.

Barsnes H, Côté RG, Eidhammer I, Martens L.

BMC Bioinformatics. 2010 Jan 17;11:34. doi: 10.1186/1471-2105-11-34.

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