Group: dbmi-nlp - with tag biomedical [70 articles] Export

Recent papers posted by members of the dbmi-nlp group with tag biomedical

	Beyond genes, proteins, and abstracts: Identifying scientific claims from full-text biomedical articles. [My Copy] Journal of biomedical informatics (6 November 2009) by Catherine Blake posted to syntactic-features semantic-features relation-extraction observations evidence correlations comparison claims biomedical by henk-cul to the group dbmi-nlp on 2009-11-11 17:29:39 as
	Construction of an annotated corpus to support biomedical information extraction [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (23 October 2009), 349. by Paul Thompson, Syed Iqbal, John McNaught, Sophia Ananiadou posted to syntax semantics semantic-roles information-extraction biomedical annotation by henk-cul to the group dbmi-nlp on 2009-10-28 18:23:48 as along with 3 people and 2 groups kshameer cisevol Effie BergmanLab NaCTeM
	Structuring and extracting knowledge for the support of hypothesis generation in molecular biology [My Copy] BMC Bioinformatics, Vol. 10, No. Suppl 10. (2009), S9. by Marco Roos, M. Scott Marshall, Andrew Gibson, et al.Martijn Schuemie, Edgar Meij, Sophia Katrenko, Willem van Hage, Konstantinos Krommydas, Pieter Adriaans posted to hypothesis-generation biomedical application by henk-cul to the group dbmi-nlp on 2009-10-07 20:41:18 as along with 6 people fisherp Keywan artaban421 lmichan druvus dullhunk
	Empirical distributional semantics: methods and biomedical applications. [My Copy] Journal of biomedical informatics, Vol. 42, No. 2. (13 April 2009), pp. 390-405. by Trevor Cohen, Dominic Widdows posted to word-meaning semantics semantic-relatedness biomedical applications by henk-cul to the group dbmi-nlp on 2009-09-22 15:31:47 as along with 5 people artaban421 briordan mitko vlachmore dullhunk
	Recognizing names in biomedical texts: a machine learning approach. [My Copy] Bioinformatics (Oxford, England), Vol. 20, No. 7. (1 May 2004), pp. 1178-1190. by GuoDong Zhou, Jie Zhang, Jian Su, Dan Shen, ChewLim Tan posted to named-entity-recognition machine-learning k_nearest_neighbor hmm biomedical by henk-cul to the group dbmi-nlp on 2009-09-16 20:06:34 as along with 4 people and 2 groups svozil arafalov irenas farzanehs Bioinformatics dbk-lab
	Themes in biomedical natural language processing: BioNLP08 [My Copy] BMC Bioinformatics, Vol. 9, No. Suppl 11. (2008), S1. by Dina D. Fushman, Sophia Ananiadou, K. Bretonnel Cohen, John Pestian, Jun'ichi Tsujii, Bonnie Webber posted to overview nlp biomedical by henk-cul to the group dbmi-nlp on 2009-08-14 15:03:39 as along with 2 people eesruiz Effie
	Feature Generation and Representations for Protein-Protein Interaction Classification. [My Copy] Journal of biomedical informatics (16 July 2009) by Man Lan, Jian Su, Chew Lim L. Tan posted to biomedical feature-engineering feature-representation nlp protein-interactions by henk-cul to the group dbmi-nlp on 2009-07-23 14:57:13 as
	Manual annotation of protein interactions. [My Copy] Methods in molecular biology (Clifton, N.J.), Vol. 563 (2009), pp. 75-95. by S. Bureeva, S. Zvereva, V. Romanov, T. Serebryiskaya posted to annotation biomedical curation protein-interactions by henk-cul to the group dbmi-nlp on 2009-07-23 14:52:06 as along with 1 person kshameer
	Mining Protein-Protein Interactions from Published Literature Using Linguamatics I2E. [My Copy] Methods in molecular biology (Clifton, N.J.), Vol. 563 (2009), pp. 3-13. by J. Bandy, D. Milward, S. McQuay posted to biomedical co-occurrence linguamatics linguistic-patterns proteins text-mining by henk-cul to the group dbmi-nlp on 2009-07-17 14:39:46 as along with 1 person zimbo1
	The BioScope corpus: annotation for negation, uncertainty and their scope in biomedical texts [My Copy] In Proceedings of the Workshop on Current Trends in Biomedical Natural Language Processing (June 2008), pp. 38-45. by György Szarvas, Veronika Vincze, Richárd Farkas, János Csirik posted to biomedical bioscope clinical hedging negation scope uncertainty by henk-cul to the group dbmi-nlp on 2009-07-15 02:43:27 as
	Categorising Modality in Biomedical Texts [My Copy] In LREC 2008 (2008) by Paul Thompson, Giulia Venturi, John Mcnaught, Simonetta Montemagni, Sophia Ananiadou posted to biomedical hedging modality by henk-cul to the group dbmi-nlp on 2009-07-15 02:41:45 as
	Using Dependency Parsing and Probabilistic Inference to Extract Relationships between Genes, Proteins and Malignancies Implicit Among Multiple Biomedical Research Abstracts [My Copy] In Proceedings of the HLT-NAACL BioNLP Workshop on Linking Natural Language and Biology (June 2006), pp. 104-111. by Ben Goertzel, Hugo Pinto, Ari Heljakka, Michael Ross, Cassio Pennachin, Izabela Goertzel posted to biomedical dependency-parsing relation-extraction by henk-cul to the group dbmi-nlp on 2009-07-15 01:14:43 as
	The textual characteristics of traditional and Open Access scientific journals are similar. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (2009), 183. by Karin Verspoor, K. Bretonnel Cohen, Lawrence Hunter posted to anaphora biomedical conjunction genre linguistics negation passive by henk-cul to the group dbmi-nlp on 2009-06-19 14:36:17 as along with 3 people robert85 nuin reyez
	Bridging the Gap between Domain-Oriented and Linguistically-Oriented Semantics [My Copy] In Proceedings of the BioNLP 2009 Workshop (June 2009), pp. 162-170. by Sumire Uematsu, Jin D. Kim, Jun'ichi Tsujii posted to biomedical domain-knowledge linguistics semantics syntax by henk-cul to the group dbmi-nlp on 2009-06-18 16:52:17 as
	Exploring Two Biomedical Text Genres for Disease Recognition [My Copy] In Proceedings of the BioNLP 2009 Workshop (June 2009), pp. 144-152. by Aurelie Neveol, Won Kim, John W. Wilbur, Zhiyong Lu posted to biomedical genre named-entity-recognition by henk-cul to the group dbmi-nlp on 2009-06-18 16:50:53 as
	Identifying Interaction Sentences from Biological Literature Using Automatically Extracted Patterns [My Copy] In Proceedings of the BioNLP 2009 Workshop (June 2009), pp. 133-141. by Haibin Liu, Christian Blouin, Vlado Keselj posted to biomedical pattern-learning sentence-classification by henk-cul to the group dbmi-nlp on 2009-06-18 16:49:20 as
	TX Task: Automatic Detection of Focus Organisms in Biomedical Publications [My Copy] In Proceedings of the BioNLP 2009 Workshop (June 2009), pp. 80-88. by Thomas Kappeler, Kaarel Kaljurand, Fabio Rinaldi posted to biomedical focus topic-labeling by henk-cul to the group dbmi-nlp on 2009-06-18 16:46:18 as
	Learning the Scope of Hedge Cues in Biomedical Texts [My Copy] In Proceedings of the BioNLP 2009 Workshop (June 2009), pp. 28-36. by Roser Morante, Walter Daelemans posted to biomedical contextual-features hedging scope by henk-cul to the group dbmi-nlp on 2009-06-18 16:43:56 as
	@Note: a workbench for biomedical text mining. [My Copy] Journal of biomedical informatics, Vol. 42, No. 4. (22 August 2009), pp. 710-720. by Anália Lourenço, Rafael Carreira, Sónia Carneiro, et al.Paulo Maia, Daniel Glez-Peña, Florentino Fdez-Riverola, Eugénio C. Ferreira, Isabel Rocha, Miguel Rocha posted to architecture biomedical curation information-retrieval note text-mining by henk-cul to the group dbmi-nlp on 2009-06-11 21:36:39 as along with 7 people artaban421 kshameer zimbo1 liblab guhjy dullhunk reyez
	Automatic reconstruction of a bacterial regulatory network using Natural Language Processing [My Copy] BMC Bioinformatics, Vol. 8 (07 August 2007), 293. by Carlos Rodriguez-Penagos, Heladia Salgado, Irma Martinez-Flores, Julio Collado-Vides posted to biomedical curation interactions network by henk-cul to the group dbmi-nlp on 2009-06-09 21:59:05 as along with 2 people lptolik farzanehs
	Using Maximum Entropy Model to Extract Protein-Protein Interaction Information from Biomedical Literature [My Copy] Advanced Intelligent Computing Theories and Applications. With Aspects of Theoretical and Methodological Issues (2007), pp. 730-737. by Chengjie Sun, Lei Lin, Xiaolong Wang, Yi Guan posted to biomedical information-extraction machine-learning maximum-entropy ppi sentence-classification by henk-cul to the group dbmi-nlp on 2009-06-09 21:49:37 as
	Extracting Protein-Protein Interaction Information from Biomedical Text with SVM [My Copy] IEICE - Trans. Inf. Syst., Vol. E89-D, No. 8. (2006), pp. 2464-2466. by Tomohiro Mitsumori, Masaki Murata, Yasushi Fukuda, Kouichi Doi, Hirohumi Doi posted to biomedical information-extraction machine-learning ppi proteins svm by henk-cul to the group dbmi-nlp on 2009-06-09 21:47:06 as along with 2 people farzanehs satre
	Event extraction from biomedical papers using a full parser. [My Copy] Pac Symp Biocomput (2001), pp. 408-419. by A. Yakushiji, Y. Tateisi, Y. Miyao, J. Tsujii posted to biomedical information-extraction parsing by henk-cul to the group dbmi-nlp on 2009-06-08 17:59:09 as along with 3 people and 1 group vlachmore helliontroy yggdrasil biomedical-nlp
	Text-mining assisted regulatory annotation [My Copy] Genome Biology, Vol. 9, No. 2. (2008) by Stein Aerts, Maximilian Haeussler, Steven van Vooren, et al.Obi Griffith, Paco Hulpiau, Steven Jones, Stephen Montgomery, Casey Bergman, The posted to biomedical classification document-classification information-retrieval medline regulatory-networks text-mining vector-space-model by henk-cul to the group dbmi-nlp on 2009-06-08 17:51:23 as along with 13 people and 1 group artaban421 daforerog daveGerrard cisevol yas dullhunk maximilianh idonaldson mircea jsjoly isimpson bpcusack guhjy BergmanLab
	Three BioNLP Tools Powered by a Biological Lexicon [My Copy] In Proceedings of the Demonstrations Session at EACL 2009 (April 2009), pp. 61-64. by Yutaka Sasaki, Paul Thompson, John Mcnaught, Sophia Ananiadou posted to biomedical information-retrieval lexicon parsing pos-tagging question-answering tools by henk-cul to the group dbmi-nlp on 2009-06-01 15:59:38 as
	Extraction of CYP chemical interactions from biomedical literature using natural language processing methods. [My Copy] Journal of chemical information and modeling, Vol. 49, No. 2. (February 2009), pp. 263-269. by D. Jiao, D. J. Wild posted to biomedical chemical dependency-parsing interactions maximum-entropy named-entity-recognition nlp parssing pos-tagging relation-extraction text-mining by henk-cul to the group dbmi-nlp on 2009-05-20 21:12:23 as
	Learning ontological rules to extract multiple relations of genic interactions from text. [My Copy] International journal of medical informatics (22 April 2009) by Alain-Pierre P. Manine, Erick Alphonse, Philippe Bessières posted to biomedical genes ilp information-extraction ontologies rules by henk-cul to the group dbmi-nlp on 2009-05-18 16:43:04 as along with 1 person dullhunk
	Lexical adaptation of link grammar to the biomedical sublanguage: a comparative evaluation of three approaches [My Copy] BMC Bioinformatics, Vol. 7, No. Suppl 3. (2006) by Sampo Pyysalo, Tapio Salakoski, Sophie Aubin, Adeline Nazarenko posted to biomedical link-grammar parsing by henk-cul to the group dbmi-nlp on 2009-05-11 17:25:20 as along with 3 people arafalov dmcc gilesc
	The interaction of domain knowledge and linguistic structure in natural language processing: interpreting hypernymic propositions in biomedical text. [My Copy] Journal of biomedical informatics, Vol. 36, No. 6. (December 2003), pp. 462-477. by Thomas C. Rindflesch, Marcelo Fiszman posted to biomedical semantics syntax umls by henk-cul to the group dbmi-nlp on 2009-05-07 17:57:32 as along with 4 people and 2 groups anthropomorphism irenas kkaiser cor5014 dbk-lab IEG
	A System for Ontology-Based Annotation of Biomedical Data [My Copy] Data Integration in the Life Sciences (2008), pp. 144-152. by Clement Jonquet, Mark Musen, Nigam Shah posted to annotation biomedical ontologies by henk-cul to the group dbmi-nlp on 2009-04-29 15:26:33 as along with 1 person irenas
	Categorising modality in biomedical texts [My Copy] In Proceedings of the LREC 2008 Workshop on Building and Evaluating Resources for Biomedical Text Mining 2008 (2008) by P. Thompson, G. Venturi, J. Mcnaught, S. Montemagni, S. Ananiadou posted to biomedical classification contextual-features by henk-cul to the group dbmi-nlp on 2009-04-24 19:32:03 as
	Towards Automatic Detection of Experimental Methods from Biomedical Literature [My Copy] In SMBM'08 (2008) by Thomas Kappeler, Simon Clematide, Kaarel Kaljurand, Gerold Schneider, Fabio Rinaldi posted to biomedical named-entities by henk-cul to the group dbmi-nlp on 2009-04-24 15:02:08 as
	Assigning roles to protein mentions: The case of transcription factors [My Copy] Journal of Biomedical Informatics, Vol. 42, No. 5. (10 October 2009), pp. 887-894. by Hui Yang, John Keane, Casey M. Bergman, Goran Nenadic posted to biomedical information-extraction keywords machine-learning named-entities parsing by henk-cul to the group dbmi-nlp on 2009-04-23 14:46:52 as along with 3 people druvus operon dullhunk
	Argument-predicate distance as a filter for enhancing precision in extracting predications on the genetic etiology of disease. [My Copy] BMC bioinformatics, Vol. 7 (08 June 2006), 291. by M. Masseroli, H. Kilicoglu, F. M. Lang, T. C. Rindflesch posted to biomedical co-occurrence parsing relation-extraction syntax by henk-cul to the group dbmi-nlp on 2009-04-17 15:38:00 as along with 4 people and 2 groups mitko hpiwowar bundschu dejori ic4 generif_paper
	Creating reference datasets for systems biology applications using text mining. [My Copy] Annals of the New York Academy of Sciences, Vol. 1158, No. 1. (March 2009), pp. 14-28. by M. Krallinger, A. M. Rojas, A. Valencia posted to annotation biomedical knowledge-base text-mining by henk-cul to the group dbmi-nlp on 2009-04-15 14:55:14 as along with 3 people lmichan liblab zimbo1
	The Language of Bioscience: Facts, Speculations, and Statements In Between [My Copy] In HLT-NAACL 2004 Workshop: BioLINK 2004, Linking Biological Literature, Ontologies and Databases (May 2004), pp. 17-24. by Marc Light, Xin Y. Qiu, Padmini Srinivasan edited by Lynette Hirschman, James Pustejovsky posted to biomedical contextual-features by henk-cul to the group dbmi-nlp on 2009-04-14 15:54:13 as
	Recognizing speculative language in biomedical research articles: a linguistically motivated perspective [My Copy] BMC Bioinformatics, Vol. 9, No. Suppl 11. (2008), S10. by Halil Kilicoglu, Sabine Bergler posted to biomedical contextual-features by henk-cul to the group dbmi-nlp on 2009-04-14 15:51:59 as along with 2 people and 1 group fordparsons Effie NaCTeM
	Detecting gene relations from Medline abstracts. [My Copy] Pac Symp Biocomput (2001), pp. 483-495. by M. Stephens, M. Palakal, S. Mukhopadhyay, R. Raje, J. Mostafa posted to biomedical relation-extraction by henk-cul to the group dbmi-nlp on 2009-04-10 15:41:26 as along with 2 people and 1 group yas satre T_lab
	Detection of gene interactions based on syntactic relations. [My Copy] Journal of biomedicine & biotechnology, Vol. 2008 (2008) by M. Y. Kim posted to biomedical relation-extraction syntax by henk-cul to the group dbmi-nlp on 2009-04-10 15:38:54 as
	Assessment of disease named entity recognition on a corpus of annotated sentences. [My Copy] BMC bioinformatics, Vol. 9 Suppl 3, No. Suppl 3. (2008), S3. by Antonio Jimeno, Ernesto Jimenez-Ruiz, Vivian Lee, Sylvain Gaudan, Rafael Berlanga, Dietrich Rebholz-Schuhmann posted to biomedical clinical metamap named-entities by henk-cul to the group dbmi-nlp on 2009-04-10 15:36:41 as along with 6 people and 2 groups balajis cdepablo eesruiz Effie guhjy dullhunk ImagCom - Biomedical Text Computing NaCTeM
	Association of genes to genetically inherited diseases using data mining [My Copy] Nature Genetics, Vol. 31, No. 3. (13 May 2002), pp. 316-319. by Carolina Perez-Iratxeta, Peer Bork, Miguel A. Andrade posted to biomedical relation-extraction by henk-cul to the group dbmi-nlp on 2009-04-10 15:33:37 as along with 9 people and 1 group anthropomorphism irenas daforerog jiny kittyraysia BioGeek miguel yas fisherp T_lab
	Nominalization and alternations in biomedical language. [My Copy] PLoS ONE, Vol. 3, No. 9. (2008) by K. B. Cohen, M. Palmer, L. Hunter posted to biomedical language by henk-cul to the group dbmi-nlp on 2009-04-07 14:18:21 as along with 3 people and 1 group Effie vlachmore yas NaCTeM
	Discovering contradicting protein-protein interactions in text [My Copy] In Biological, translational, and clinical language processing (June 2007), pp. 195-196. by Olivia Sanchez, Massimo Poesio posted to biomedical contextual-features negation by henk-cul to the group dbmi-nlp on 2009-03-23 21:04:48 as
	Quantitative Data on Referring Expressions in Biomedical Abstracts [My Copy] In Biological, translational, and clinical language processing (June 2007), pp. 193-194. by Michael Poprat, Udo Hahn posted to biomedical coreference-resolution by henk-cul to the group dbmi-nlp on 2009-03-23 21:04:05 as
	A Pilot Annotation to Investigate Discourse Connectivity in Biomedical Text [My Copy] In Proceedings of the Workshop on Current Trends in Biomedical Natural Language Processing (June 2008), pp. 92-93. by Hong Yu, Nadya Frid, Susan Mcroy, Rashmi Prasad, Alan Lee, Aravind Joshi posted to biomedical discourse by henk-cul to the group dbmi-nlp on 2009-03-23 20:55:59 as
	Benchmarking natural-language parsers for biological applications using dependency graphs [My Copy] BMC Bioinformatics, Vol. 8, No. 1. (25 January 2007), 24. by Andrew Clegg, Adrian Shepherd posted to biomedical parsing by henk-cul to the group dbmi-nlp on 2009-03-19 17:24:23 as along with 7 people vlachmore andrewclegg aclegg operon bhaddow kemo TheresaNiederberger
	Automatically Acquiring a Linguistically Motivated Genic Interaction Extraction System [My Copy] In In Proceedings of the 4th Learning Language in Logic Workshop (LLL05 (2005) by Mark A. Greenwood, Mark Stevenson, Yikun Guo, Henk Harkema, Angus Roberts posted to biomedical relation-extraction by henk-cul to the group dbmi-nlp on 2009-03-07 00:42:40 as
	Corpus Design for Biomedical Natural Language Processing [My Copy] In Proceedings of the ACL-ISMB Workshop on Linking Biological Literature, Ontologies and Databases: Mining Biological Semantics (June 2005), pp. 38-45. by Bretonnel K. Cohen, Lynne Fox, Philip V. Ogren, Lawrence Hunter posted to annotation biomedical by henk-cul to the group dbmi-nlp on 2009-03-07 00:41:31 as
	Intrinsic evaluation of text mining tools may not predict performance on realistic tasks. [My Copy] Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing (2008), pp. 640-651. by J. G. Caporaso, N. Deshpande, J. L. Fink, P. E. Bourne, K. B. Cohen, L. Hunter posted to biomedical evaluation by henk-cul to the group dbmi-nlp on 2009-02-17 14:58:54 as
	An open-source framework for large-scale, flexible evaluation of biomedical text mining systems [My Copy] Journal of Biomedical Discovery and Collaboration, Vol. 3 (29 January 2008), 1. by William A. Baumgartner, Bretonnel K. Cohen, Lawrence Hunter posted to biomedical evaluation infrastructure by henk-cul to the group dbmi-nlp on 2009-02-13 17:14:09 as along with 2 people guhjy satre

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review	48
text-mining	39
nlp	38
ciberinfraestructura	29
relation-extraction	29
pubmed	25
e-science	24
ontology	24
literature	21
semantic	20
annotation	19
databases	18
parsing	18
web	17
bioinformatics	15
ner	15
information-extraction	14
mining	13
text	13
machine-learning	12
ontologies	12
contextual-features	11
microfabrication	11
microfluidics	11
syntax	11
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biology	10
bionlp	10
crf	10
mems	10
search	10
semantics	10
biomems	9
20	8
co-occurrence	8
curation	8
engineering	8
gene	8
imaging	8
information-retrieval	8
metaheuristic	8
microsystems	8
clinical	7
engines	7
function	7
medical	7
metric	7
negation	7
protein	7
research	7
semantic_systems	7
umls	7
analysis	6
biosensors	6
comparison	6
evaluation	6
hedging	6
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metamap	6
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tool	6
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chemical_sensors	5
informatics	5
information	5
medicine	5
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network	5
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ppi	5
proteins	5
retrieval	5
sentence-classification	5
text_mining	5
tools	5
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classification	4
corpus	4
data-mining	4
dependency-parsing	4
drug	4
evolutionary-computation	4
genomics	4
genre	4
interactions	4
linguistics	4
medline	4
micromachining	4
named-entities	4
nelder-mead	4
parameter-estimation	4
pos-tagging	4
pressure	4
protein-interactions	4
rdf	4
relationship	4
scope	4
structural-biology	4
vocabulary	4

Group: dbmi-nlp - with tag biomedical [70 articles] Export

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