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Inter-species normalization of gene mentions with GNAT.
Hakenberg J, Plake C, Leaman R, Schroeder M, Gonzalez G. Hakenberg J, et al. Bioinformatics. 2008 Aug 15;24(16):i126-132. doi: 10.1093/bioinformatics/btn299. Bioinformatics. 2008. PMID: 18689813
Efficient extraction of protein-protein interactions from full-text articles.
Hakenberg J, Leaman R, Vo NH, Jonnalagadda S, Sullivan R, Miller C, Tari L, Baral C, Gonzalez G. Hakenberg J, et al. IEEE/ACM Trans Comput Biol Bioinform. 2010 Jul-Sep;7(3):481-94. doi: 10.1109/TCBB.2010.51. IEEE/ACM Trans Comput Biol Bioinform. 2010. PMID: 20498514 Free article.
The GNAT library for local and remote gene mention normalization.
Hakenberg J, Gerner M, Haeussler M, Solt I, Plake C, Schroeder M, Gonzalez G, Nenadic G, Bergman CM. Hakenberg J, et al. Bioinformatics. 2011 Oct 1;27(19):2769-71. doi: 10.1093/bioinformatics/btr455. Epub 2011 Aug 3. Bioinformatics. 2011. PMID: 21813477 Free PMC article.
Systematic feature evaluation for gene name recognition.
Hakenberg J, Bickel S, Plake C, Brefeld U, Zahn H, Faulstich L, Leser U, Scheffer T. Hakenberg J, et al. BMC Bioinformatics. 2005;6 Suppl 1(Suppl 1):S9. doi: 10.1186/1471-2105-6-S1-S9. Epub 2005 May 24. BMC Bioinformatics. 2005. PMID: 15960843 Free PMC article.
AliBaba: PubMed as a graph.
Plake C, Schiemann T, Pankalla M, Hakenberg J, Leser U. Plake C, et al. Among authors: hakenberg j. Bioinformatics. 2006 Oct 1;22(19):2444-5. doi: 10.1093/bioinformatics/btl408. Epub 2006 Jul 26. Bioinformatics. 2006. PMID: 16870931
Overview of BioCreative II gene normalization.
Morgan AA, Lu Z, Wang X, Cohen AM, Fluck J, Ruch P, Divoli A, Fundel K, Leaman R, Hakenberg J, Sun C, Liu HH, Torres R, Krauthammer M, Lau WW, Liu H, Hsu CN, Schuemie M, Cohen KB, Hirschman L. Morgan AA, et al. Among authors: hakenberg j. Genome Biol. 2008;9 Suppl 2(Suppl 2):S3. doi: 10.1186/gb-2008-9-s2-s3. Epub 2008 Sep 1. Genome Biol. 2008. PMID: 18834494 Free PMC article.
Introducing meta-services for biomedical information extraction.
Leitner F, Krallinger M, Rodriguez-Penagos C, Hakenberg J, Plake C, Kuo CJ, Hsu CN, Tsai RT, Hung HC, Lau WW, Johnson CA, Saetre R, Yoshida K, Chen YH, Kim S, Shin SY, Zhang BT, Baumgartner WA Jr, Hunter L, Haddow B, Matthews M, Wang X, Ruch P, Ehrler F, Ozgür A, Erkan G, Radev DR, Krauthammer M, Luong T, Hoffmann R, Sander C, Valencia A. Leitner F, et al. Among authors: hakenberg j. Genome Biol. 2008;9 Suppl 2(Suppl 2):S6. doi: 10.1186/gb-2008-9-s2-s6. Epub 2008 Sep 1. Genome Biol. 2008. PMID: 18834497 Free PMC article.
32 results