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Gene mention normalization and interaction extraction with context models and sentence motifs
Jörg Hakenberg, Conrad Plake, Loic Royer, Hendrik Strobelt, Ulf Leser, Michael Schroeder
Genome Biol. 2008; 9(Suppl 2): S14. Published online 2008 September 1. doi: 10.1186/gb-2008-9-s2-s14
PMCID:
PMC2559985
Abstract Full Text PDF–779K Supplementary Material

Is Cited by the Following 10 Articles in this Archive:

The gene normalization task in BioCreative III
Zhiyong Lu, Hung-Yu Kao, Chih-Hsuan Wei, Minlie Huang, Jingchen Liu, Cheng-Ju Kuo, Chun-Nan Hsu, Richard Tzong-Han Tsai, Hong-Jie Dai, Naoaki Okazaki, Han-Cheol Cho, Martin Gerner, Illes Solt, Shashank Agarwal, Feifan Liu, Dina Vishnyakova, Patrick Ruch, Martin Romacker, Fabio Rinaldi, Sanmitra Bhattacharya, Padmini Srinivasan, Hongfang Liu, Manabu Torii, Sergio Matos, David Campos, Karin Verspoor, Kevin M Livingston, W John Wilbur
BMC Bioinformatics. 2011; 12(Suppl 8): S2. Published online 2011 October 3. doi: 10.1186/1471-2105-12-S8-S2
PMCID:
PMC3269937
Abstract Full Text PDF–441K Supplementary Material
Cross-species gene normalization by species inference
Chih-Hsuan Wei, Hung-Yu Kao
BMC Bioinformatics. 2011; 12(Suppl 8): S5. Published online 2011 October 3. doi: 10.1186/1471-2105-12-S8-S5
PMCID:
PMC3269940
Abstract Full Text PDF–654K
Soft tagging of overlapping high confidence gene mention variants for cross-species full-text gene normalization
Cheng-Ju Kuo, Maurice HT Ling, Chun-Nan Hsu
BMC Bioinformatics. 2011; 12(Suppl 8): S6. Published online 2011 October 3. doi: 10.1186/1471-2105-12-S8-S6
PMCID:
PMC3269941
Abstract Full Text PDF–668K
The PPI affix dictionary (PPIAD) and BioMethod Lexicon: importance of affixes and tags for recognition of entity mentions and experimental protein interactions
Martin Krallinger, Ashish V Tendulkar, Florian Leitner, Andrew Chatr-aryamontri, Alfonso Valencia
BMC Bioinformatics. 2010; 11(Suppl 5): O1. Published online 2010 October 6. doi: 10.1186/1471-2105-11-S5-O1
PMCID:
PMC2956388
Full Text PDF–390K
Simple tricks for improving pattern-based information extraction from the biomedical literature
Quang Long Nguyen, Domonkos Tikk, Ulf Leser
J Biomed Semantics. 2010; 1: 9. Published online 2010 September 24. doi: 10.1186/2041-1480-1-9
PMCID:
PMC2955645
Abstract Full Text PDF–735K Supplementary Material
Improving textual medication extraction using combined conditional random fields and rule-based systems
Domonkos Tikk, Illés Solt
J Am Med Inform Assoc. 2010 September; 17(5): 540–544. doi: 10.1136/jamia.2010.004119
PMCID:
PMC2995683
Abstract Full Text PDF–139K
A Comprehensive Benchmark of Kernel Methods to Extract Protein–Protein Interactions from Literature
Domonkos Tikk, Philippe Thomas, Peter Palaga, Jörg Hakenberg, Ulf Leser
PLoS Comput Biol. 2010 July; 6(7): e1000837. Published online 2010 July 1. doi: 10.1371/journal.pcbi.1000837
PMCID:
PMC2895635
Abstract Full Text PDF–2.2M Supplementary Material
Improved mutation tagging with gene identifiers applied to membrane protein stability prediction
Rainer Winnenburg, Conrad Plake, Michael Schroeder
BMC Bioinformatics. 2009; 10(Suppl 8): S3. Published online 2009 August 27. doi: 10.1186/1471-2105-10-S8-S3
PMCID:
PMC2745585
Abstract Full Text PDF–665K
GoGene: gene annotation in the fast lane
Conrad Plake, Loic Royer, Rainer Winnenburg, Jörg Hakenberg, Michael Schroeder
Nucleic Acids Res. 2009 July 1; 37(Web Server issue): W300–W304. Published online 2009 July 1. doi: 10.1093/nar/gkp429
PMCID:
PMC2703922
Abstract Full Text PDF–1.8M
Biomedical word sense disambiguation with ontologies and metadata: automation meets accuracy
Dimitra Alexopoulou, Bill Andreopoulos, Heiko Dietze, Andreas Doms, Fabien Gandon, Jörg Hakenberg, Khaled Khelif, Michael Schroeder, Thomas Wächter
BMC Bioinformatics. 2009; 10: 28. Published online 2009 January 21. doi: 10.1186/1471-2105-10-28
PMCID:
PMC2663782
Abstract Full Text PDF–1011K Supplementary Material
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