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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. Comeau DC, et al. Among authors: rinaldi f. Database (Oxford). 2014 Jun 30;2014:bau053. doi: 10.1093/database/bau053. Print 2014. Database (Oxford). 2014. PMID: 24980129 Free PMC article. Review.
The gene normalization task in BioCreative III.
Lu Z, Kao HY, Wei CH, Huang M, Liu J, Kuo CJ, Hsu CN, Tsai RT, Dai HJ, Okazaki N, Cho HC, Gerner M, Solt I, Agarwal S, Liu F, Vishnyakova D, Ruch P, Romacker M, Rinaldi F, Bhattacharya S, Srinivasan P, Liu H, Torii M, Matos S, Campos D, Verspoor K, Livingston KM, Wilbur WJ. Lu Z, et al. Among authors: rinaldi f. BMC Bioinformatics. 2011 Oct 3;12 Suppl 8(Suppl 8):S2. doi: 10.1186/1471-2105-12-S8-S2. BMC Bioinformatics. 2011. PMID: 22151901 Free PMC article.
The Protein-Protein Interaction tasks of BioCreative III: classification/ranking of articles and linking bio-ontology concepts to full text.
Krallinger M, Vazquez M, Leitner F, Salgado D, Chatr-Aryamontri A, Winter A, Perfetto L, Briganti L, Licata L, Iannuccelli M, Castagnoli L, Cesareni G, Tyers M, Schneider G, Rinaldi F, Leaman R, Gonzalez G, Matos S, Kim S, Wilbur WJ, Rocha L, Shatkay H, Tendulkar AV, Agarwal S, Liu F, Wang X, Rak R, Noto K, Elkan C, Lu Z, Dogan RI, Fontaine JF, Andrade-Navarro MA, Valencia A. Krallinger M, et al. Among authors: rinaldi f. BMC Bioinformatics. 2011 Oct 3;12 Suppl 8(Suppl 8):S3. doi: 10.1186/1471-2105-12-S8-S3. BMC Bioinformatics. 2011. PMID: 22151929 Free PMC article.
BioCreative III interactive task: an overview.
Arighi CN, Roberts PM, Agarwal S, Bhattacharya S, Cesareni G, Chatr-Aryamontri A, Clematide S, Gaudet P, Giglio MG, Harrow I, Huala E, Krallinger M, Leser U, Li D, Liu F, Lu Z, Maltais LJ, Okazaki N, Perfetto L, Rinaldi F, Sætre R, Salgado D, Srinivasan P, Thomas PE, Toldo L, Hirschman L, Wu CH. Arighi CN, et al. Among authors: rinaldi f. BMC Bioinformatics. 2011 Oct 3;12 Suppl 8(Suppl 8):S4. doi: 10.1186/1471-2105-12-S8-S4. BMC Bioinformatics. 2011. PMID: 22151968 Free PMC article.
Using ODIN for a PharmGKB revalidation experiment.
Rinaldi F, Clematide S, Garten Y, Whirl-Carrillo M, Gong L, Hebert JM, Sangkuhl K, Thorn CF, Klein TE, Altman RB. Rinaldi F, et al. Database (Oxford). 2012 Apr 23;2012:bas021. doi: 10.1093/database/bas021. Print 2012. Database (Oxford). 2012. PMID: 22529178 Free PMC article.
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. Comeau DC, et al. Among authors: rinaldi f. Database (Oxford). 2013 Sep 18;2013:bat064. doi: 10.1093/database/bat064. Print 2013. Database (Oxford). 2013. PMID: 24048470 Free PMC article.
BioC implementations in Go, Perl, Python and Ruby.
Liu W, Islamaj Doğan R, Kwon D, Marques H, Rinaldi F, Wilbur WJ, Comeau DC. Liu W, et al. Among authors: rinaldi f. Database (Oxford). 2014 Jun 23;2014:bau059. doi: 10.1093/database/bau059. Print 2014. Database (Oxford). 2014. PMID: 24961236 Free PMC article.
OntoGene web services for biomedical text mining.
Rinaldi F, Clematide S, Marques H, Ellendorff T, Romacker M, Rodriguez-Esteban R. Rinaldi F, et al. BMC Bioinformatics. 2014;15 Suppl 14(Suppl 14):S6. doi: 10.1186/1471-2105-15-S14-S6. Epub 2014 Nov 27. BMC Bioinformatics. 2014. PMID: 25472638 Free PMC article.
522 results