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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. Schober D, et al. Among authors: smith b. BMC Bioinformatics. 2009 Apr 27;10:125. doi: 10.1186/1471-2105-10-125. BMC Bioinformatics. 2009. PMID: 19397794 Free PMC article.
TGF-beta signaling proteins and the Protein Ontology.
Arighi CN, Liu H, Natale DA, Barker WC, Drabkin H, Blake JA, Smith B, Wu CH. Arighi CN, et al. Among authors: smith b. BMC Bioinformatics. 2009 May 6;10 Suppl 5(Suppl 5):S3. doi: 10.1186/1471-2105-10-S5-S3. BMC Bioinformatics. 2009. PMID: 19426460 Free PMC article.
Toward an ontological treatment of disease and diagnosis.
Scheuermann RH, Ceusters W, Smith B. Scheuermann RH, et al. Among authors: smith b. Summit Transl Bioinform. 2009 Mar 1;2009:116-20. Summit Transl Bioinform. 2009. PMID: 21347182 Free PMC article.
The representation of protein complexes in the Protein Ontology (PRO).
Bult CJ, Drabkin HJ, Evsikov A, Natale D, Arighi C, Roberts N, Ruttenberg A, D'Eustachio P, Smith B, Blake JA, Wu C. Bult CJ, et al. Among authors: smith b. BMC Bioinformatics. 2011 Sep 19;12:371. doi: 10.1186/1471-2105-12-371. BMC Bioinformatics. 2011. PMID: 21929785 Free PMC article.
Protein Ontology: a controlled structured network of protein entities.
Natale DA, Arighi CN, Blake JA, Bult CJ, Christie KR, Cowart J, D'Eustachio P, Diehl AD, Drabkin HJ, Helfer O, Huang H, Masci AM, Ren J, Roberts NV, Ross K, Ruttenberg A, Shamovsky V, Smith B, Yerramalla MS, Zhang J, AlJanahi A, Çelen I, Gan C, Lv M, Schuster-Lezell E, Wu CH. Natale DA, et al. Among authors: smith b. Nucleic Acids Res. 2014 Jan;42(Database issue):D415-21. doi: 10.1093/nar/gkt1173. Epub 2013 Nov 21. Nucleic Acids Res. 2014. PMID: 24270789 Free PMC article.
Protein Ontology (PRO): enhancing and scaling up the representation of protein entities.
Natale DA, Arighi CN, Blake JA, Bona J, Chen C, Chen SC, Christie KR, Cowart J, D'Eustachio P, Diehl AD, Drabkin HJ, Duncan WD, Huang H, Ren J, Ross K, Ruttenberg A, Shamovsky V, Smith B, Wang Q, Zhang J, El-Sayed A, Wu CH. Natale DA, et al. Among authors: smith b. Nucleic Acids Res. 2017 Jan 4;45(D1):D339-D346. doi: 10.1093/nar/gkw1075. Epub 2016 Nov 28. Nucleic Acids Res. 2017. PMID: 27899649 Free PMC article.
Framework for a protein ontology.
Natale DA, Arighi CN, Barker WC, Blake J, Chang TC, Hu Z, Liu H, Smith B, Wu CH. Natale DA, et al. Among authors: smith b. BMC Bioinformatics. 2007 Nov 27;8 Suppl 9(Suppl 9):S1. doi: 10.1186/1471-2105-8-S9-S1. BMC Bioinformatics. 2007. PMID: 18047702 Free PMC article.
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