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Items: 1 to 20 of 99

1.

The BioC-BioGRID corpus: full text articles annotated for curation of protein-protein and genetic interactions.

Islamaj Dogan R, Kim S, Chatr-Aryamontri A, Chang CS, Oughtred R, Rust J, Wilbur WJ, Comeau DC, Dolinski K, Tyers M.

Database (Oxford). 2017 Jan 10;2017. doi: 10.1093/database/baw147. Print 2017.

2.

BioCreative V BioC track overview: collaborative biocurator assistant task for BioGRID.

Kim S, Islamaj Doğan R, Chatr-Aryamontri A, Chang CS, Oughtred R, Rust J, Batista-Navarro R, Carter J, Ananiadou S, Matos S, Santos A, Campos D, Oliveira JL, Singh O, Jonnagaddala J, Dai HJ, Su EC, Chang YC, Su YC, Chu CH, Chen CC, Hsu WL, Peng Y, Arighi C, Wu CH, Vijay-Shanker K, Aydın F, Hüsünbeyi ZM, Özgür A, Shin SY, Kwon D, Dolinski K, Tyers M, Wilbur WJ, Comeau DC.

Database (Oxford). 2016 Sep 1;2016. pii: baw121. doi: 10.1093/database/baw121. Print 2016.

3.

BioC viewer: a web-based tool for displaying and merging annotations in BioC.

Shin SY, Kim S, Wilbur WJ, Kwon D.

Database (Oxford). 2016 Aug 10;2016. pii: baw106. doi: 10.1093/database/baw106. Print 2016.

4.

Meshable: searching PubMed abstracts by utilizing MeSH and MeSH-derived topical terms.

Kim S, Yeganova L, Wilbur WJ.

Bioinformatics. 2016 Oct 1;32(19):3044-6. doi: 10.1093/bioinformatics/btw331. Epub 2016 Jun 10.

5.

Database resources of the National Center for Biotechnology Information.

NCBI Resource Coordinators..

Nucleic Acids Res. 2016 Jan 4;44(D1):D7-19. doi: 10.1093/nar/gkv1290. Epub 2015 Nov 28.

6.

Optimizing graph-based patterns to extract biomedical events from the literature.

Liu H, Verspoor K, Comeau DC, MacKinlay AD, Wilbur W.

BMC Bioinformatics. 2015;16 Suppl 16:S2. doi: 10.1186/1471-2105-16-S16-S2. Epub 2015 Oct 30.

7.

Identifying named entities from PubMed for enriching semantic categories.

Kim S, Lu Z, Wilbur WJ.

BMC Bioinformatics. 2015 Feb 21;16:57. doi: 10.1186/s12859-015-0487-2.

8.

Extracting drug-drug interactions from literature using a rich feature-based linear kernel approach.

Kim S, Liu H, Yeganova L, Wilbur WJ.

J Biomed Inform. 2015 Jun;55:23-30. doi: 10.1016/j.jbi.2015.03.002. Epub 2015 Mar 19.

9.

Database resources of the National Center for Biotechnology Information.

NCBI Resource Coordinators..

Nucleic Acids Res. 2015 Jan;43(Database issue):D6-17. doi: 10.1093/nar/gku1130. Epub 2014 Nov 14.

10.

Retro: concept-based clustering of biomedical topical sets.

Yeganova L, Kim W, Kim S, Wilbur WJ.

Bioinformatics. 2014 Nov 15;30(22):3240-8. doi: 10.1093/bioinformatics/btu514. Epub 2014 Jul 29.

11.

Assisting manual literature curation for protein-protein interactions using BioQRator.

Kwon D, Kim S, Shin SY, Chatr-aryamontri A, Wilbur WJ.

Database (Oxford). 2014 Jul 22;2014. pii: bau067. doi: 10.1093/database/bau067. Print 2014.

12.

BioC interoperability track overview.

Comeau DC, Batista-Navarro RT, Dai HJ, Doğan RI, Yepes AJ, Khare R, Lu Z, Marques H, Mattingly CJ, Neves M, Peng Y, Rak R, Rinaldi F, Tsai RT, Verspoor K, Wiegers TC, Wu CH, Wilbur WJ.

Database (Oxford). 2014 Jun 30;2014. pii: bau053. doi: 10.1093/database/bau053. Print 2014. Review.

13.

A Study of the Morpho-Semantic Relationship in Medline.

Wilbur WJ, Smith L.

Open Inf Syst J. 2013 Nov 21;6:1-12.

14.

BioC implementations in Go, Perl, Python and Ruby.

Liu W, Islamaj Doğan R, Kwon D, Marques H, Rinaldi F, Wilbur WJ, Comeau DC.

Database (Oxford). 2014 Jun 23;2014. pii: bau059. doi: 10.1093/database/bau059. Print 2014.

15.

Natural language processing pipelines to annotate BioC collections with an application to the NCBI disease corpus.

Comeau DC, Liu H, Islamaj Doğan R, Wilbur WJ.

Database (Oxford). 2014 Jun 16;2014. pii: bau056. doi: 10.1093/database/bau056. Print 2014. Erratum in: Database (Oxford). 2014;2014:bau072.

16.

Finding abbreviations in biomedical literature: three BioC-compatible modules and four BioC-formatted corpora.

Islamaj Doğan R, Comeau DC, Yeganova L, Wilbur WJ.

Database (Oxford). 2014 Jun 9;2014. pii: bau044. doi: 10.1093/database/bau044. Print 2014.

17.

Stochastic Gradient Descent and the Prediction of MeSH for PubMed Records.

Wilbur WJ, Kim W.

AMIA Annu Symp Proc. 2014 Nov 14;2014:1198-207. eCollection 2014.

18.

BioC: a minimalist approach to interoperability for biomedical text processing.

Comeau DC, Islamaj Doğan R, Ciccarese P, Cohen KB, Krallinger M, Leitner F, Lu Z, Peng Y, Rinaldi F, Torii M, Valencia A, Verspoor K, Wiegers TC, Wu CH, Wilbur WJ.

Database (Oxford). 2013 Sep 18;2013:bat064. doi: 10.1093/database/bat064. Print 2013.

19.

An overview of the BioCreative 2012 Workshop Track III: interactive text mining task.

Arighi CN, Carterette B, Cohen KB, Krallinger M, Wilbur WJ, Fey P, Dodson R, Cooper L, Van Slyke CE, Dahdul W, Mabee P, Li D, Harris B, Gillespie M, Jimenez S, Roberts P, Matthews L, Becker K, Drabkin H, Bello S, Licata L, Chatr-aryamontri A, Schaeffer ML, Park J, Haendel M, Van Auken K, Li Y, Chan J, Muller HM, Cui H, Balhoff JP, Chi-Yang Wu J, Lu Z, Wei CH, Tudor CO, Raja K, Subramani S, Natarajan J, Cejuela JM, Dubey P, Wu C.

Database (Oxford). 2013 Jan 17;2013:bas056. doi: 10.1093/database/bas056. Print 2013.

20.

Database resources of the National Center for Biotechnology Information.

NCBI Resource Coordinators..

Nucleic Acids Res. 2013 Jan;41(Database issue):D8-D20. doi: 10.1093/nar/gks1189. Epub 2012 Nov 27.

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