Search Results - "Cohen, K. B."

BioC: a minimalist approach to interoperability for biomedical text processing by Comeau, Donald C, Islamaj Doğan, Rezarta, Ciccarese, Paolo, Cohen, Kevin Bretonnel, Krallinger, Martin, Leitner, Florian, Lu, Zhiyong, Peng, Yifan, Rinaldi, Fabio, Torii, Manabu, Valencia, Alfonso, Verspoor, Karin, Wiegers, Thomas C, Wu, Cathy H, Wilbur, W John

“…A vast amount of scientific information is encoded in natural language text, and the quantity of such text has become so great that it is no longer…”
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The compositional structure of Gene Ontology terms by Ogren, P V, Cohen, K B, Acquaah-Mensah, G K, Eberlein, J, Hunter, L

“…An analysis of the term names in the Gene Ontology reveals the prevalence of substring relations between terms: 65.3% of all GO terms contain another GO term…”
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Mining the pharmacogenomics literature--a survey of the state of the art by Hahn, Udo, Cohen, K Bretonnel, Garten, Yael, Shah, Nigam H

“…This article surveys efforts on text mining of the pharmacogenomics literature, mainly from the period 2008 to 2011. Pharmacogenomics (or pharmacogenetics) is…”
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Effect of dose on the metabolism of 1,1,2,2-tetrabromoethane in F344/N rats after gavage administration by Kennedy, C H, Cohen, K B, Bechtold, W E, Chang, I Y, Eidson, A F, Dahl, A R, Henderson, R F

“…1,1,2,2-Tetrabromo[U-14C]ethane ([14C]TBE) was used to study the metabolism of TBE in rats. Three graded doses of TBE (1.17, 13.6, and 123 mg/kg; 1 microCi…”
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Large-scale biomedical concept recognition: an evaluation of current automatic annotators and their parameters by Funk, Christopher, Baumgartner, Jr, William, Garcia, Benjamin, Roeder, Christophe, Bada, Michael, Cohen, K Bretonnel, Hunter, Lawrence E, Verspoor, Karin

“…Ontological concepts are useful for many different biomedical tasks. Concepts are difficult to recognize in text due to a disconnect between what is captured…”
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Concept annotation in the CRAFT corpus by Bada, Michael, Eckert, Miriam, Evans, Donald, Garcia, Kristin, Shipley, Krista, Sitnikov, Dmitry, Baumgartner, Jr, William A, Cohen, K Bretonnel, Verspoor, Karin, Blake, Judith A, Hunter, Lawrence E

“…Manually annotated corpora are critical for the training and evaluation of automated methods to identify concepts in biomedical text. This paper presents the…”
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Frontiers of biomedical text mining: current progress by Zweigenbaum, Pierre, Demner-Fushman, Dina, Yu, Hong, Cohen, Kevin B.

“…It is now almost 15 years since the publication of the first paper on text mining in the genomics domain, and decades since the first paper on text mining in…”
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Soft-tissue reconstruction for recalcitrant diabetic foot wounds by Cohen, Brenda K., Zabel, David D., Newton, E. Douglas, Catanzariti, Alan R.

“…Thirty-three consecutive patients with plantar soft-tissue defects were managed by a single surgeon (EDN) with reconstruction by a medial plantar artery…”
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Text mining for the biocuration workflow by Hirschman, L., Burns, G. A. P. C., Krallinger, M., Arighi, C., Cohen, K. B., Valencia, A., Hu, C. H., Chatr-Aryamontri, A., Dowell, K. G., Huala, E., Lourenço, Anália, Nash, R., Veuthey, A. L., Wiegers, T., Winter, A. G.

“…Molecular biology has become heavily dependent on biological knowledge encoded in expert curated biological databases. As the volume of biological literature…”
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Emotionally Disturbed Hearing-Impaired Children: A Review of the Literature by Cohen, Beverley K.

“…In the light of literature written about emotionally disturbed children, this paper focuses on the causes and characteristics of emotional disturbance among…”
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BioCreative-IV virtual issue by Arighi, Cecilia N, Wu, Cathy H, Cohen, Kevin B, Hirschman, Lynette, Krallinger, Martin, Valencia, Alfonso, Lu, Zhiyong, Wilbur, John W, Wiegers, Thomas C

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Biomedical Language Processing: What's Beyond PubMed? by Hunter, Lawrence, Cohen, K. Bretonnel

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An overview of the BioCreative 2012 Workshop Track III: interactive text mining task by Arighi, Cecilia N, Carterette, Ben, Cohen, K Bretonnel, Krallinger, Martin, Wilbur, W John, Fey, Petra, Dodson, Robert, Cooper, Laurel, Van Slyke, Ceri E, Dahdul, Wasila, Mabee, Paula, Li, Donghui, Harris, Bethany, Gillespie, Marc, Jimenez, Silvia, Roberts, Phoebe, Matthews, Lisa, Becker, Kevin, Drabkin, Harold, Bello, Susan, Licata, Luana, Chatr-aryamontri, Andrew, Schaeffer, Mary L, Park, Julie, Haendel, Melissa, Van Auken, Kimberly, Li, Yuling, Chan, Juancarlos, Muller, Hans-Michael, Cui, Hong, Balhoff, James P, Chi-Yang Wu, Johnny, Lu, Zhiyong, Wei, Chih-Hsuan, Tudor, Catalina O, Raja, Kalpana, Subramani, Suresh, Natarajan, Jeyakumar, Cejuela, Juan Miguel, Dubey, Pratibha, Wu, Cathy

“…In many databases, biocuration primarily involves literature curation, which usually involves retrieving relevant articles, extracting information that will…”
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BioCreative-2012 virtual issue by Wu, Cathy H, Arighi, Cecilia N, Cohen, Kevin B, Hirschman, Lynette, Krallinger, Martin, Lu, Zhiyong, Mattingly, Carolyn, Valencia, Alfonso, Wiegers, Thomas C, John Wilbur, W

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BioCreAtIvE task1A: entity identification with a stochastic tagger by Kinoshita, Shuhei, Cohen, K Bretonnel, Ogren, Philip V, Hunter, Lawrence

“…Our approach to Task 1A was inspired by Tanabe and Wilbur's ABGene system. Like Tanabe and Wilbur, we approached the problem as one of part-of-speech tagging,…”
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Current issues in biomedical text mining and natural language processing by Cohen, K. Bretonnel

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Rapid pattern development for concept recognition systems: application to point mutations by Caporaso, J Gregory, Baumgartner, William A, Randolph, David A, Cohen, K Bretonnel, Hunter, Lawrence

“…The primary biomedical literature is being generated at an unprecedented rate, and researchers cannot keep abreast of new developments in their fields…”
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Implications of compositionality in the gene ontology for its curation and usage by Ogren, Philip V, Cohen, K Bretonnel, Hunter, Lawrence

“…In this paper we argue that a richer underlying representational model for the Gene Ontology that captures the implicit compositional structure of GO terms…”
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Variability in the production of quantal vowels revisited by Beckman, Mary E., Jung, Tzyy-Ping, Lee, Sook-hyang, de Jong, Kenneth, Krishnamurthy, Ashok K., Ahalt, Stanley C., Cohen, K. Bretonnel, Collins, Michael J.

“…Articulatory and acoustic variability in the production of five American English vowels was examined. The data were movement records for selected fleshpoints…”
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iProLINK: A Framework for Linking Text Mining with Ontology and Systems Biology by Zhang-Zhi Hu, Cohen, K.B., Hirschman, L., Valencia, A., Hongfang Liu, Giglio, M.G., Wu, C.H.

“…The ever-increasing scientific literature and the exponential growth of large-scale molecular data have prompted active research in biological text mining to…”
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