farzanehs's library 115 articles Export

	NLTK: The Natural Language Toolkit [My Copy] (17 May 2002) by Edward Loper, Steven Bird posted to nltk by farzanehs on 2009-10-10 16:12:36 as along with 1 person and 1 group hpiwowar dbmi-nlp
	A realistic assessment of methods for extracting gene/protein interactions from free text. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (28 July 2009), 233. by Renata Kabiljo, Andrew B. Clegg, Adrian J. Shepherd posted to ppi by farzanehs on 2009-08-20 10:24:53 as along with 11 people and 4 groups henk-cul martingerner DTD102 satre grahamc mitko sjcockell sillitoe andrewclegg cisevol barriot dbmi-nlp Journal picks Orengo Group Journal Picks BergmanLab
	Auto-marking: using computational linguistics to score short, free text responses [My Copy] by Jana Z. Sukkarieh, Stephen G. Pulman, Nicholas Raikes posted to automatic_marking by farzanehs on 2009-08-12 14:53:05 as
	Temporal Annotation of Clinical Text [My Copy] posted to no-tag by farzanehs on 2009-07-27 18:33:43 as
	Multi-way relation classification: application to protein-protein interactions [My Copy] In HLT '05: Proceedings of the conference on Human Language Technology and Empirical Methods in Natural Language Processing (2005), pp. 732-739. by Barbara Rosario, Marti A. Hearst posted to hiv relation_extraction by farzanehs on 2009-06-03 14:22:41 as
	Exploring hedge identification in biomedical literature. [My Copy] Journal of biomedical informatics, Vol. 41, No. 4. (11 August 2008), pp. 636-654. by B. Medlock posted to speculation by farzanehs on 2009-02-28 21:29:15 as along with 5 people and 1 group artaban421 henk-cul vlachmore dullhunk hpiwowar dbmi-nlp
	Corpora and their annotation [My Copy] In Text Mining for Biology and Biomedicine (2006), pp. 179-212. by Jin-Dong Kim, Jun'ichi Tsujii edited by Sophia Ananiadou, John Mcnaught posted to biology biomedicine text_mining by farzanehs on 2009-01-06 12:08:17 as
	BioContrasts: extracting and exploiting proteinprotein contrastive relations from biomedical literature [My Copy] Bioinformatics, Vol. 22, No. 5. (1 March 2006), pp. 597-605. by Jung-Jae Kim, Zhuo Zhang, Jong C. Park, See-Kiong Ng posted to contradiction contrasts ppi by farzanehs on 2009-01-05 11:06:43 as
	Evaluating the automatic mapping of human gene and protein mentions to unique identifiers. [My Copy] Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing (2007), pp. 281-291. by A. A. Morgan, B. Wellner, J. B. Colombe, R. Arens, M. E. Colosimo, L. Hirschman posted to identification nei ner normalization by farzanehs on 2009-01-05 10:34:21 as
	MeKE: discovering the functions of gene products from biomedical literature via sentence alignment [My Copy] Bioinformatics, Vol. 19, No. 11. (22 July 2003), pp. 1417-1422. by Jung-Hsien Chiang, Hsu-Chun Yu posted to no-tag by farzanehs on 2009-01-01 13:59:45 as
	Computer-Assisted Generation of a Protein-Interaction Database for Nuclear Receptors [My Copy] Mol Endocrinol, Vol. 17, No. 8. (1 August 2003), pp. 1555-1567. by Sylvie Albert, Sylvain Gaudan, Heidrun Knigge, et al.Andreas Raetsch, Asuncion Delgado, Bettina Huhse, Harald Kirsch, Michael Albers, Dietrich Rebholz-Schuhmann, Manfred Koegl posted to ppi by farzanehs on 2009-01-01 01:06:09 as
	Protein structures and information extraction from biological texts: the PASTA system. [My Copy] Bioinformatics, Vol. 19, No. 1. (January 2003), pp. 135-143. by R. Gaizauskas, G. Demetriou, P. J. Artymiuk, P. Willett posted to no-tag by farzanehs on 2008-12-31 23:50:11 as along with 4 people and 2 groups irenas caporaso vlachmore yggdrasil dbk-lab biomedical-nlp
	Using Text Analysis to Identify Functionally Coherent Gene Groups — Genome Research [My Copy] Genome Research, Vol. 12 (2002), pp. 1582-1590. by Soumya Raychaudhuri, Hinrich Schütze, Russ B. Altman posted to no-tag by farzanehs on 2008-12-31 23:37:30 as
	GENIES: a natural-language processing system for the extraction of molecular pathways from journal articles [My Copy] Comput. Appl. Biosci., Vol. 17, No. suppl_1. (1 June 2001), pp. S74-82. by Carol Friedman, Pauline Kra, Hong Yu, Michael Krauthammer, Andrey Rzhetsky posted to no-tag by farzanehs on 2008-12-27 15:50:09 as along with 7 people and 2 groups Cartic robert85 snuppepuppan irenas yas johnkork dejori dbk-lab T_lab
	Literature-based discovery by lexical statistics [My Copy] J. Am. Soc. Inf. Sci., Vol. 50, No. 7. (May 1999), pp. 574-587. by Robert K. Lindsay, Michael D. Gordon posted to statistics by farzanehs on 2008-12-27 15:36:59 as along with 2 people and 1 group yas akastrin T_lab
	Automatic extraction of gene and protein synonyms from medline and journal articles [My Copy] In Proc. AMIA Symp, Vol. 23 (2002), pp. 919-923. by Hong Yu, Vasileios Hatzivassiloglou, Carol Friedman, Andrey Rzhetsky, John W. Wilbur posted to protein synonym by farzanehs on 2008-12-27 15:30:23 as
	Integrating Co-occurrence Statistics with Information Extraction for Robust Retrieval of Protein Interactions from Medline [My Copy] In Proceedings of the BioNLP Workshop on Linking Natural Language Processing and Biology at HLT-NAACL 06 (June 2006), pp. 49-56. by Razvan Bunescu, Raymond Mooney, Arun Ramani, Edward Marcotte posted to ppi statistics survey by farzanehs on 2008-12-27 13:12:44 as
	Extracting synonymous gene and protein terms from biological literature. [My Copy] Bioinformatics, Vol. 19 Suppl 1 (2003) by H. Yu, E. Agichtein posted to no-tag by farzanehs on 2008-12-27 12:22:35 as along with 3 people and 3 groups cisevol irenas yas BergmanLab dbk-lab T_lab
	Text mining and ontologies in biomedicine: Making sense of raw text [My Copy] Brief Bioinform, Vol. 6, No. 3. (1 January 2005), pp. 239-251. by Irena Spasic, Sophia Ananiadou, John McNaught, Anand Kumar posted to briefings survey text_mining by farzanehs on 2008-12-23 14:00:11 as along with 17 people and 5 groups lmichan tsunol artaban421 daforerog liblab svozil arafalov henk-cul lauras irenas andytseng yas hpiwowar helliontroy johnkork daniel_schober yggdrasil Bioinformatics NLP dbk-lab T_lab biomedical-nlp
	Overview of the protein-protein interaction annotation extraction task of BioCreative II [My Copy] Genome Biology, Vol. 9, No. Suppl 2. (2008), S4. by Martin Krallinger, Florian Leitner, Carlos R. Penagos, Alfonso Valencia posted to biocreative ppi by farzanehs on 2008-12-07 17:46:48 as along with 2 people and 1 group satre Effie NaCTeM
	Towards the use of argumentation in bioinformatics: a gene expression case study [My Copy] Bioinformatics, Vol. 24, No. 13. (1 July 2008), pp. i304-312. by Kenneth Mcleod, Albert Burger posted to argumentation conflict ontology by farzanehs on 2008-12-04 15:04:27 as along with 2 people dullhunk renatomilani
	The BioScope corpus: biomedical texts annotated for uncertainty, negation and their scopes [My Copy] BMC Bioinformatics, Vol. 9, No. Suppl 11. (2008) by Veronika Vincze, Gyorgy Szarvas, Richard Farkas, Gyorgy Mora, Janos Csirik posted to annotated negation uncertainty by farzanehs on 2008-11-25 16:46:19 as along with 2 people and 1 group Effie henk-cul dbmi-nlp
	Overview of BioCreative II gene normalization [My Copy] Genome Biology, Vol. 9, No. Suppl 2. (2008) by Alexander Morgan, Zhiyong Lu, Xinglong Wang, et al.Aaron Cohen, Juliane Fluck, Patrick Ruch, Anna Divoli, Katrin Fundel, Robert Leaman, Jorg Hakenberg, Chengjie Sun, Heng H. Liu, Rafael Torres, Michael Krauthammer, William Lau, Hongfang Liu, Chun N. Hsu, Martijn Schuemie, Bretonnel K. Cohen, Lynette Hirschman posted to biocreative survey by farzanehs on 2008-11-20 01:09:59 as along with 1 person yggdrasil
	Developing a Robust Part-of-Speech Tagger for Biomedical Text [My Copy] Advances in Informatics (2005), pp. 382-392. by Yoshimasa Tsuruoka, Yuka Tateishi, Jin-Dong Kim, et al.Tomoko Ohta, John McNaught, Sophia Ananiadou, Jun’ichi Tsujii posted to geniatagger by farzanehs on 2008-11-18 13:15:18 as along with 2 people johnkork satre
	Negation Detection in Automated Medical Applications [My Copy] by Stefan Gindl posted to negation survey by farzanehs on 2008-11-02 18:54:29 as
	A comparison of string distance metrics for name-matching tasks [My Copy] (2003) by W. Cohen, P. Ravikumar, S. Fienberg posted to ner string_distance by farzanehs on 2008-11-01 16:29:56 as along with 3 people chrisd pdlug vlachmore
	Human immunodeficiency virus type 1, human protein interaction database at NCBI [My Copy] Nucl. Acids Res. (15 October 2008), gkn708. by William Fu, Brigitte E. Sanders-Beer, Kenneth S. Katz, Donna R. Maglott, Kim D. Pruitt, Roger G. Ptak posted to hiv ncbi ppi by farzanehs on 2008-10-29 23:47:00 as along with 1 person grahamc
	DTDs for Bioinformatics [My Copy] XML for Bioinformatics (2005), pp. 49-79. posted to bioinformatics xml by farzanehs on 2008-10-22 19:42:11 as along with 1 person hammadafzal
	Toward information extraction: identifying protein names from biological papers [My Copy] (1998), pp. 707-718. by K. Fukuda posted to ner by farzanehs on 2008-10-20 19:00:20 as along with 1 person hammadafzal
	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 file-import-08-10-19 by farzanehs on 2008-10-19 16:57:44 as
	Negation of protein protein interactions: analysis and extraction [My Copy] Bioinformatics, Vol. 23, No. 13. (1 July 2007), pp. i424-432. by Olivia Sanchez-Graillet, Massimo Poesio posted to negation ppi by farzanehs on 2008-10-19 14:34:25 as along with 1 person iris_2001
	Summarizing Scientific Articles: Experiments with Relevance and Rhetorical Status [My Copy] by Simone Teufel, Marc Moens posted to contrast summarizing by farzanehs on 2008-10-19 14:18:11 as
	Manual curation is not sufficient for annotation of genomic databases [My Copy] Bioinformatics, Vol. 23, No. 13. (1 July 2007), pp. i41-48. by William A. Baumgartner, Bretonnel K. Cohen, Lynne M. Fox, George Acquaah-Mensah, Lawrence Hunter posted to survey by farzanehs on 2008-10-17 15:29:36 as along with 2 people sgoetz satre
	Biomedical Language Processing: Perspective What's Beyond PubMed? [My Copy] Molecular cell, Vol. 21, No. 5. (3 March 2006), pp. 589-594. by Lawrence Hunter, Bretonnel K. Cohen posted to bionlp survey by farzanehs on 2008-10-17 15:13:48 as along with 16 people and 3 groups billhao Gaetan artaban421 robert85 lmichan gavinhoran ogenex henk-cul irenas andytseng yas hpiwowar caporaso jacky957 TheresaNiederberger satre dbk-lab T_lab biomedical-nlp
	Frontiers of biomedical text mining: current progress [My Copy] Brief Bioinform (30 October 2007), bbm045. by Pierre Zweigenbaum, Dina Demner-Fushman, Hong Yu, Kevin B. Cohen posted to biomedicine briefings survey text_mining by farzanehs on 2008-10-17 13:29:04 as along with 20 people and 3 groups artaban421 Effie svozil eitanla1 junehlee Keywan arafalov henk-cul Waderoad vkwn bqchinh cisevol guhjy yas dullhunk hpiwowar wchapman yggdrasil TheresaNiederberger irenas Bioinformatics BergmanLab dbmi-nlp
	BioInfer: a corpus for information extraction in the biomedical domain [My Copy] BMC Bioinformatics, Vol. 8, No. 1. (2007), 50. by Sampo Pyysalo, Filip Ginter, Juho Heimonen, et al.Jari Bjorne, Jorma Boberg, Jouni Jarvinen, Tapio Salakoski posted to bioinfer bioinformatics biomedicine bionlp corpus nlp ppi relation by farzanehs on 2008-09-28 14:08:06 as along with 10 people and 1 group satre arafalov sacebro yas lynnefox bhaddow johnkork balex kemo mircea T_lab
	Towards Standardisation of Named-Entity Annotations in the Life Science Literature [My Copy] In Proceedings of the Third International Symposium on Semantic Mining in Biomedicine (SMBM 2008), Turku, Finland (2008), pp. 167-169. by Dietrich R. Schuhmann, Goran Nenadic edited by Tapio Salakoski, Dietrich R. Schuhmann, Sampo Pyysalo posted to iexml smbm2008 standard standardisation by farzanehs on 2008-09-27 18:23:11 as
	Towards Ontological Interpretations for Improved Text Mining [My Copy] In Proceedings of the Third International Symposium on Semantic Mining in Biomedicine (SMBM 2008), Turku, Finland (2008), pp. 165-166. by Robert Hoehndorf, Axel, Michael Dannemann edited by Tapio Salakoski, Dietrich R. Schuhmann, Sampo Pyysalo posted to smbm2008 by farzanehs on 2008-09-27 18:23:11 as
	Improving OCR Performance in Biomedical Literature Retrieval through Preprocessing and Postprocessing [My Copy] In Proceedings of the Third International Symposium on Semantic Mining in Biomedicine (SMBM 2008), Turku, Finland (2008), pp. 161-164. by Songhua Xu, Jim Mccusker, Martin Schultz, Michael Krauthammer edited by Tapio Salakoski, Dietrich R. Schuhmann, Sampo Pyysalo posted to smbm2008 by farzanehs on 2008-09-27 18:23:11 as
	Mining for Gene-Related Key Terms: Where Do We Find Them? [My Copy] In Proceedings of the Third International Symposium on Semantic Mining in Biomedicine (SMBM 2008), Turku, Finland (2008), pp. 157-160. by Catalina Tudor, Carl Schmidt, Vijay K. Shanker edited by Tapio Salakoski, Dietrich R. Schuhmann, Sampo Pyysalo posted to smbm2008 by farzanehs on 2008-09-27 18:23:11 as
	Assessment of Modifying versus Non-modifying Protein Interactions [My Copy] In Proceedings of the Third International Symposium on Semantic Mining in Biomedicine (SMBM 2008), Turku, Finland (2008), pp. 153-156. by Dietrich R. Schuhmann, Antonio Jimeno, Miguel Arregui, Harald Kirsch edited by Tapio Salakoski, Dietrich R. Schuhmann, Sampo Pyysalo posted to smbm2008 by farzanehs on 2008-09-27 18:23:11 as
	Why Biomedical Relation Extraction Results are Incomparable and What to do about it [My Copy] In Proceedings of the Third International Symposium on Semantic Mining in Biomedicine (SMBM 2008), Turku, Finland (2008), pp. 149-152. by Sampo Pyysalo, Rune S\aetre, Jun'ichi Tsujii, Tapio Salakoski edited by Tapio Salakoski, Dietrich R. Schuhmann, Sampo Pyysalo posted to smbm2008 by farzanehs on 2008-09-27 18:23:11 as
	Towards Knowledge Discovery through Automatic Inference with Text Mining in Biology and Medicine [My Copy] In Proceedings of the Third International Symposium on Semantic Mining in Biomedicine (SMBM 2008), Turku, Finland (2008), pp. 145-148. by Hee J. Lee, Jong C. Park edited by Tapio Salakoski, Dietrich R. Schuhmann, Sampo Pyysalo posted to smbm2008 by farzanehs on 2008-09-27 18:23:11 as
	Protein Name Tagging in the Immunological Domain [My Copy] In Proceedings of the Third International Symposium on Semantic Mining in Biomedicine (SMBM 2008), Turku, Finland (2008), pp. 141-144. by Renata Kabiljo, Adrian Shepherd edited by Tapio Salakoski, Dietrich R. Schuhmann, Sampo Pyysalo posted to smbm2008 by farzanehs on 2008-09-27 18:23:11 as
	Classifying Verbs in Biomedical Text Using Subject-Verb-Object Relationships [My Copy] In Proceedings of the Third International Symposium on Semantic Mining in Biomedicine (SMBM 2008), Turku, Finland (2008), pp. 137-140. by Pieter van der Horn, Bart Bakker, Gijs Geleijnse, Jan Korst, Sergei Kurkin edited by Tapio Salakoski, Dietrich R. Schuhmann, Sampo Pyysalo posted to smbm2008 by farzanehs on 2008-09-27 18:23:11 as
	Accurate Conversion of Dependency Parses: Targeting the Stanford Scheme [My Copy] In Proceedings of the Third International Symposium on Semantic Mining in Biomedicine (SMBM 2008), Turku, Finland (2008), pp. 133-136. by Katri Haverinen, Filip Ginter, Sampo Pyysalo, Tapio Salakoski edited by Tapio Salakoski, Dietrich R. Schuhmann, Sampo Pyysalo posted to smbm2008 by farzanehs on 2008-09-27 18:23:11 as
	Syntactic pattern matching with GraphSpider and MPL [My Copy] In Proceedings of the Third International Symposium on Semantic Mining in Biomedicine (SMBM 2008), Turku, Finland (2008), pp. 129-132. by Andrew B. Clegg, Adrian J. Shepherd edited by Tapio Salakoski, Dietrich R. Schuhmann, Sampo Pyysalo posted to smbm2008 by farzanehs on 2008-09-27 18:23:11 as
	How Complex are Complex Protein-protein Interactions? [My Copy] In Proceedings of the Third International Symposium on Semantic Mining in Biomedicine (SMBM 2008), Turku, Finland (2008), pp. 125-128. by Jari Björne, Sampo Pyysalo, Filip Ginter, Tapio Salakoski edited by Tapio Salakoski, Dietrich R. Schuhmann, Sampo Pyysalo posted to smbm2008 by farzanehs on 2008-09-27 18:23:11 as
	Exploring the Compatibility of Heterogeneous Protein Annotations Toward Corpus Integration [My Copy] In Proceedings of the Third International Symposium on Semantic Mining in Biomedicine (SMBM 2008), Turku, Finland (2008), pp. 117-124. by Yue Wang, Jin D. Kim, Rune S\aetre, Jun'ichi Tsujii edited by Tapio Salakoski, Dietrich R. Schuhmann, Sampo Pyysalo posted to smbm2008 by farzanehs on 2008-09-27 18:23:10 as
	BioLexicon: A Lexical Resource for the Biology Domain [My Copy] In Proceedings of the Third International Symposium on Semantic Mining in Biomedicine (SMBM 2008), Turku, Finland (2008), pp. 109-116. by Yutaka Sasaki, Simonetta Montemagni, Piotr Pezik, Dietrich R. Schuhman, John Mcnaught, Sophia Ananiadou edited by Tapio Salakoski, Dietrich R. Schuhmann, Sampo Pyysalo posted to smbm2008 by farzanehs on 2008-09-27 18:23:10 as

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farzanehs's library 115 articles Export

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