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Items: 1 to 20 of 175

1.

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.

2.

OnEX: Exploring changes in life science ontologies.

Hartung M, Kirsten T, Gross A, Rahm E.

BMC Bioinformatics. 2009 Aug 13;10:250. doi: 10.1186/1471-2105-10-250.

3.

The MGED Ontology: a resource for semantics-based description of microarray experiments.

Whetzel PL, Parkinson H, Causton HC, Fan L, Fostel J, Fragoso G, Game L, Heiskanen M, Morrison N, Rocca-Serra P, Sansone SA, Taylor C, White J, Stoeckert CJ Jr.

Bioinformatics. 2006 Apr 1;22(7):866-73. Epub 2006 Jan 21.

4.

Ontology Design Patterns for bio-ontologies: a case study on the Cell Cycle Ontology.

Aranguren ME, Antezana E, Kuiper M, Stevens R.

BMC Bioinformatics. 2008 Apr 29;9 Suppl 5:S1. doi: 10.1186/1471-2105-9-S5-S1.

5.

The chemical information ontology: provenance and disambiguation for chemical data on the biological semantic web.

Hastings J, Chepelev L, Willighagen E, Adams N, Steinbeck C, Dumontier M.

PLoS One. 2011;6(10):e25513. doi: 10.1371/journal.pone.0025513. Epub 2011 Oct 3.

6.

Data-driven ontologies.

Costello JC, Schrider D, Gehlhausen J, Dalkilic M.

Pac Symp Biocomput. 2009:15-26.

7.

Transforming semi-structured life science diagrams into meaningful domain ontologies with DiDOn.

Keet CM.

J Biomed Inform. 2012 Jun;45(3):482-94. doi: 10.1016/j.jbi.2012.01.004. Epub 2012 Jan 26.

8.

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.

9.

OntoCAT--simple ontology search and integration in Java, R and REST/JavaScript.

Adamusiak T, Burdett T, Kurbatova N, Joeri van der Velde K, Abeygunawardena N, Antonakaki D, Kapushesky M, Parkinson H, Swertz MA.

BMC Bioinformatics. 2011 May 29;12:218. doi: 10.1186/1471-2105-12-218.

10.

Contributions to an animal trait ontology.

Hulsegge B, Smits MA, te Pas MF, Woelders H.

J Anim Sci. 2012 Jun;90(6):2061-6. doi: 10.2527/jas.2011-4251. Epub 2012 Jan 6.

11.

Ontology-driven indexing of public datasets for translational bioinformatics.

Shah NH, Jonquet C, Chiang AP, Butte AJ, Chen R, Musen MA.

BMC Bioinformatics. 2009 Feb 5;10 Suppl 2:S1. doi: 10.1186/1471-2105-10-S2-S1.

12.

EDAM: an ontology of bioinformatics operations, types of data and identifiers, topics and formats.

Ison J, Kalas M, Jonassen I, Bolser D, Uludag M, McWilliam H, Malone J, Lopez R, Pettifer S, Rice P.

Bioinformatics. 2013 May 15;29(10):1325-32. doi: 10.1093/bioinformatics/btt113. Epub 2013 Mar 11.

13.

The Gene Ontology (GO) project: structured vocabularies for molecular biology and their application to genome and expression analysis.

Blake JA, Harris MA.

Curr Protoc Bioinformatics. 2008 Sep;Chapter 7:Unit 7.2. doi: 10.1002/0471250953.bi0702s23.

PMID:
18819077
14.

Creating the gene ontology resource: design and implementation.

Gene Ontology Consortium.

Genome Res. 2001 Aug;11(8):1425-33.

15.

Populous: a tool for building OWL ontologies from templates.

Jupp S, Horridge M, Iannone L, Klein J, Owen S, Schanstra J, Wolstencroft K, Stevens R.

BMC Bioinformatics. 2012 Jan 25;13 Suppl 1:S5. doi: 10.1186/1471-2105-13-S1-S5.

16.

Logical Gene Ontology Annotations (GOAL): exploring gene ontology annotations with OWL.

Jupp S, Stevens R, Hoehndorf R.

J Biomed Semantics. 2012 Apr 24;3 Suppl 1:S3. doi: 10.1186/2041-1480-3-S1-S3.

17.

The Gene Ontology Annotation (GOA) Database: sharing knowledge in Uniprot with Gene Ontology.

Camon E, Magrane M, Barrell D, Lee V, Dimmer E, Maslen J, Binns D, Harte N, Lopez R, Apweiler R.

Nucleic Acids Res. 2004 Jan 1;32(Database issue):D262-6.

18.

PhenoGO: an integrated resource for the multiscale mining of clinical and biological data.

Sam LT, Mendonça EA, Li J, Blake J, Friedman C, Lussier YA.

BMC Bioinformatics. 2009 Feb 5;10 Suppl 2:S8. doi: 10.1186/1471-2105-10-S2-S8.

19.

Evolutionary characters, phenotypes and ontologies: curating data from the systematic biology literature.

Dahdul WM, Balhoff JP, Engeman J, Grande T, Hilton EJ, Kothari C, Lapp H, Lundberg JG, Midford PE, Vision TJ, Westerfield M, Mabee PM.

PLoS One. 2010 May 20;5(5):e10708. doi: 10.1371/journal.pone.0010708.

20.

Atlas - a data warehouse for integrative bioinformatics.

Shah SP, Huang Y, Xu T, Yuen MM, Ling J, Ouellette BF.

BMC Bioinformatics. 2005 Feb 21;6:34.

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