| Overview of BioCreative II gene mention recognition L Smith, LK Tanabe, RJ Ando, CJ Kuo, IF Chung, CN Hsu, YS Lin, ... Genome biology 9, 1-19, 2008 | 554 | 2008 |
| Manual curation is not sufficient for annotation of genomic databases WA Baumgartner Jr, KB Cohen, LM Fox, G Acquaah-Mensah, L Hunter Bioinformatics 23 (13), i41-i48, 2007 | 320 | 2007 |
| Concept annotation in the CRAFT corpus M Bada, M Eckert, D Evans, K Garcia, K Shipley, D Sitnikov, ... BMC bioinformatics 13, 1-20, 2012 | 315 | 2012 |
| BioLemmatizer: a lemmatization tool for morphological processing of biomedical text H Liu, T Christiansen, WAB Jr, K Verspoor Journal of Biomedical Semantics 3 (1), 3, 2012 | 189 | 2012 |
| MutationFinder: a high-performance system for extracting point mutation mentions from text JG Caporaso, WA Baumgartner Jr, DA Randolph, KB Cohen, L Hunter Bioinformatics 23 (14), 1862-1865, 2007 | 186 | 2007 |
| OpenDMAP: An open source, ontology-driven concept analysis engine, with applications to capturing knowledge regarding protein transport, protein interactions and cell-type … L Hunter, Z Lu, J Firby, WA Baumgartner, HL Johnson, PV Ogren, ... BMC bioinformatics 9 (1), 78, 2008 | 176 | 2008 |
| Large-scale biomedical concept recognition: an evaluation of current automatic annotators and their parameters C Funk, W Baumgartner, B Garcia, C Roeder, M Bada, KB Cohen, ... BMC bioinformatics 15, 1-29, 2014 | 135 | 2014 |
| A corpus of full-text journal articles is a robust evaluation tool for revealing differences in performance of biomedical natural language processing tools K Verspoor, KB Cohen, A Lanfranchi, C Warner, HL Johnson, C Roeder, ... BMC bioinformatics 13, 1-26, 2012 | 130 | 2012 |
| U-Compare: share and compare text mining tools with UIMA Y Kano, WA Baumgartner Jr, L McCrohon, S Ananiadou, KB Cohen, ... Bioinformatics 25 (15), 1997-1998, 2009 | 124 | 2009 |
| Pulmonary capillaries are recruited during pulsatile flow RG Presson Jr, WA Baumgartner Jr, AJ Peterson, RW Glenny, ... Journal of Applied Physiology 92 (3), 1183-1190, 2002 | 113 | 2002 |
| Introducing meta-services for biomedical information extraction F Leitner, M Krallinger, C Rodriguez-Penagos, J Hakenberg, C Plake, ... Genome biology 9, 1-11, 2008 | 95 | 2008 |
| High-precision biological event extraction with a concept recognizer KB Cohen, K Verspoor, HL Johnson, C Roeder, P Ogren, ... Proceedings of the BioNLP 2009 Workshop Companion Volume for Shared Task, 50-58, 2009 | 93 | 2009 |
| KaBOB: ontology-based semantic integration of biomedical databases KM Livingston, M Bada, WA Baumgartner, LE Hunter BMC bioinformatics 16, 1-21, 2015 | 92 | 2015 |
| Biomedical discovery acceleration, with applications to craniofacial development SM Leach, H Tipney, W Feng, WA Baumgartner, P Kasliwal, RP Schuyler, ... PLoS computational biology 5 (3), e1000215, 2009 | 80 | 2009 |
| Coreference annotation and resolution in the Colorado Richly Annotated Full Text (CRAFT) corpus of biomedical journal articles KB Cohen, A Lanfranchi, MJ Choi, M Bada, WA Baumgartner, ... BMC bioinformatics 18, 1-14, 2017 | 71 | 2017 |
| Concept recognition for extracting protein interaction relations from biomedical text WA Baumgartner, Z Lu, HL Johnson, JG Caporaso, J Paquette, ... Genome biology 9, 1-15, 2008 | 65 | 2008 |
| Biolink Model: A universal schema for knowledge graphs in clinical, biomedical, and translational science DR Unni, SAT Moxon, M Bada, M Brush, R Bruskiewich, JH Caufield, ... Clinical and translational science 15 (8), 1848-1855, 2022 | 64 | 2022 |
| An open-source framework for large-scale, flexible evaluation of biomedical text mining systems WA Baumgartner, KB Cohen, L Hunter Journal of Biomedical Discovery and Collaboration 3 (1), 1, 2008 | 64 | 2008 |
| Evaluation of lexical methods for detecting relationships between concepts from multiple ontologies HL Johnson, KB Cohen, WA Baumgartner Jr, Z Lu, M Bada, T Kester, ... Biocomputing 2006, 28-39, 2006 | 55 | 2006 |
| Improving protein function prediction methods with integrated literature data A Gabow, S Leach, W Baumgartner, L Hunter, D Goldberg BMC bioinformatics 9 (1), 198, 2008 | 35 | 2008 |
