Effie's library 129 articles Export

	Discovering novel causal patterns from biomedical natural-language texts using Bayesian nets. [My Copy] IEEE transactions on information technology in biomedicine : a publication of the IEEE Engineering in Medicine and Biology Society, Vol. 12, No. 6. (November 2008), pp. 714-722. by John Atkinson, Alejandro Rivas posted to inference_methods causal_patterns by Effie on 2009-11-13 06:11:57 as along with 1 person and 1 group henk-cul NaCTeM
	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 annotation by Effie on 2009-10-25 14:48:52 as along with 3 people and 3 groups kshameer henk-cul cisevol dbmi-nlp BergmanLab NaCTeM
	Characterizing environmental and phenotypic associations using information theory and electronic health records [My Copy] BMC Bioinformatics, Vol. 10, No. Suppl 9. (2009), S13. by Xiaoyan Wang, George Hripcsak, Carol Friedman posted to association by Effie on 2009-10-08 15:28:39 as along with 1 person and 2 groups henk-cul NaCTeM dbmi-nlp
	The potential for automated question answering in the context of genomic medicine: an assessment of existing resources and properties of answers [My Copy] BMC Bioinformatics, Vol. 10, No. Suppl 9. (2009), S8. by Casey Overby, Peter T. Hornoch, Dina D. Fushman posted to question answering by Effie on 2009-10-08 15:27:57 as along with 1 group NaCTeM
	Enhancing navigation in biomedical databases by community voting and database-driven text classification [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 317. by Timo Duchrow, Timur Shtatland, Daniel Guettler, Misha Pivovarov, Stefan Kramer, Ralph Weissleder posted to classification by Effie on 2009-10-08 15:26:39 as along with 7 people and 2 groups perkeo artaban421 lmichan daforerog cisevol druvus dullhunk NaCTeM BergmanLab
	BIRI: a new approach for automatically discovering and indexing available public bioinformatics resources from the literature [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (7 October 2009), 320. by Guillermo de la Calle, Miguel G. Remesal, Stefano Chiesa, Diana de la Iglesia, Victor Maojo posted to classification by Effie on 2009-10-08 15:26:03 as along with 6 people and 3 groups perkeo sillitoe klauso dullhunk daforerog lmichan Orengo Group Journal Picks Bioinformatics Core Service NaCTeM
	Text mining and manual curation of chemical-gene-disease networks for the Comparative Toxicogenomics Database (CTD) [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 326. by Thomas Wiegers, Allan Davis, K. Cohen, Lynette Hirschman, Carolyn Mattingly posted to curation by Effie on 2009-10-08 15:25:01 as along with 1 group NaCTeM
	Seeking unique and common biological themes in multiple gene lists or datasets: pathway pattern extraction pipeline for pathway-level comparative analysis [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 200. by Ming Yi, Uma Mudunuri, Anney Che, Robert Stephens posted to pathways by Effie on 2009-07-20 12:05:19 as along with 5 people and 1 group ptrobajo shikin jmeppley renatomilani barriot NaCTeM
	Clique-based data mining for related genes in a biomedical database [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 205. by Tsutomu Matsunaga, Chikara Yonemori, Etsuji Tomita, Masaaki Muramatsu posted to no-tag by Effie on 2009-07-20 12:04:39 as along with 3 people and 2 groups ptrobajo daforerog ppgardne NaCTeM Journal picks
	Incorporating rich background knowledge for gene named entity classification and recognition [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (17 July 2009), 223. by Yanpeng Li, Hongfei Lin, Zhihao Yang posted to entities recognition by Effie on 2009-07-20 11:55:10 as along with 2 people and 2 groups henk-cul druvus dbmi-nlp NaCTeM
	libAnnotationSBML: a library for exploiting SBML annotations. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 17. (1 September 2009), pp. 2292-2293. by Neil Swainston, Pedro Mendes posted to sbml by Effie on 2009-07-15 23:50:32 as along with 7 people and 1 group guhjy irenas neilswainston jonathancooper jmuhlich jvb dullhunk NaCTeM
	The Increasing Dominance of Teams in Production of Knowledge [My Copy] Science, Vol. 316, No. 5827. (18 May 2007), pp. 1036-1039. by Stefan Wuchty, Benjamin F. Jones, Brian Uzzi posted to author by Effie on 2009-07-12 07:50:45 as along with 10 people and 3 groups hughesro dartar thor_bjarnason hpiwowar cmmorel dullhunk nickluscombe MariaChiaraP franzkurfess fisherp NaCTeM Parenting 2.0 EBI-regulation
	Text-mining of PubMed abstracts by natural language processing to create a public knowledge base on molecular mechanisms of bacterial enteropathogens [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 177. by Sam Zaremba, Mila R. Santacruz, Thomas Hampton, et al.Panna Shetty, Joel Fedorko, Jon Whitmore, John Greene, Nicole Perna, Jeremy Glasner, Guy Plunkett, Matthew Shaker, David Pot posted to textmining by Effie on 2009-07-06 23:18:34 as along with 10 people and 2 groups zufar druvus behindtherabbit fgibson kiekyon leemond31 nuin liblab barriot Gaetan NaCTeM Journal picks
	The effects of very early Alzheimer's disease on the characteristics of writing by a renowned author [My Copy] Brain, Vol. 128, No. 2. (February 2005), 250. by Peter Garrard, Lisa M. Maloney, John R. Hodges, Karalyn Patterson posted to ad nlp by Effie on 2009-06-09 08:08:16 as along with 1 group NaCTeM
	CRONOS: the cross-reference navigation server. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 1. (1 January 2009), pp. 141-143. by B. Waegele, I. Dunger-Kaltenbach, G. Fobo, C. Montrone, H. W. Mewes, A. Ruepp posted to search by Effie on 2009-05-29 14:18:22 as along with 2 people and 1 group guhjy nuin NaCTeM
	Issues in learning an ontology from text [My Copy] BMC Bioinformatics, Vol. 10, No. Suppl 5. (2009), S1. by Christopher Brewster, Simon Jupp, Joanne Luciano, David Shotton, Robert Stevens, Ziqi Zhang posted to ontology terminology by Effie on 2009-05-28 14:19:02 as along with 5 people and 1 group maximilianh guhjy allysonlister fgibson dullhunk NaCTeM
	Inferring novel disease indications for known drugs by semantically linking drug action and disease mechanism relationships [My Copy] BMC Bioinformatics, Vol. 10, No. Suppl 5. (2009), S4. by Xiaoyan Qu, Ranga Gudivada, Anil Jegga, Eric Neumann, Bruce Aronow posted to association mining by Effie on 2009-05-28 14:17:01 as along with 3 people and 1 group axramos Scis0000002 guhjy NaCTeM
	Open Biomedical Ontology-based Medline exploration. [My Copy] BMC bioinformatics, Vol. 10 Suppl 5 (2009) by Weijian Xuan, Manhong Dai, Barbara Mirel, et al.Jean Song, Brian Athey, Stanley J. Watson, Fan Meng posted to ontology by Effie on 2009-05-28 14:16:17 as along with 4 people and 1 group allysonlister fgibson dullhunk guhjy NaCTeM
	Text mining in healthcare. Applications and opportunities. [My Copy] Journal of healthcare information management : JHIM, Vol. 22, No. 3. (2008), pp. 52-56. by U. Raja, T. Mitchell, T. Day, J. M. Hardin posted to textmining by Effie on 2009-05-26 08:46:18 as along with 2 people and 2 groups liblab henk-cul NaCTeM dbmi-nlp
	Wnt pathway curation using automated natural language processing: combining statistical methods with partial and full parse for knowledge extraction [My Copy] Bioinformatics, Vol. 21, No. 8. (15 April 2005), pp. 1653-1658. by Carlos Santos, Daniela Eggle, David States posted to pathway by Effie on 2009-05-10 18:43:36 as along with 1 group NaCTeM
	Supporting Systematic Reviews Using Text Mining [My Copy] Social Science Computer Review, Vol. 27, No. 4. (1 November 2009), pp. 509-523. by Sophia Ananiadou, Brian Rea, Naoaki Okazaki, Rob Procter, James Thomas posted to reviews systematic textmining by Effie on 2009-05-07 23:24:23 as along with 1 person and 1 group dullhunk NaCTeM
	Ontology-driven indexing of public datasets for translational bioinformatics [My Copy] BMC Bioinformatics, Vol. 10, No. Suppl 2. (2009), S1. by Nigam Shah, Clement Jonquet, Annie Chiang, Atul Butte, Rong Chen, Mark Musen posted to ontology by Effie on 2009-05-06 06:25:01 as along with 5 people and 1 group mitko guhjy fordparsons daforerog gilesvelarde NaCTeM
	U-Compare: share and compare text mining tools with UIMA [My Copy] Bioinformatics, Vol. 25, No. 15. (1 August 2009), pp. 1997-1998. by Yoshinobu Kano, William A. Baumgartner, Luke Mccrohon, et al.Sophia Ananiadou, K. Bretonnel Cohen, Lawrence Hunter, Jun'ichi Tsujii posted to uima by Effie on 2009-05-05 19:24:54 as along with 11 people and 2 groups artaban421 fgibson satre lmichan mitko daforerog martingerner operon guhjy henk-cul dullhunk dbmi-nlp NaCTeM
	Life sciences on the Semantic Web: the Neurocommons and beyond. [My Copy] Briefings in bioinformatics, Vol. 10, No. 2. (1 March 2009), pp. 193-204. by Alan Ruttenberg, Jonathan A. Rees, Matthias Samwald, M. Scott Marshall posted to semantic web by Effie on 2009-05-05 18:22:58 as along with 10 people and 2 groups jfr rvosa guhjy druvus mikel_egana ehealthgr cassj dullhunk allysonlister fgibson FAB-lab NaCTeM
	Literature mining in support of drug discovery [My Copy] Brief Bioinform, Vol. 9, No. 6. (1 November 2008), pp. 479-492. by Pankaj Agarwal, David B. Searls posted to textmining by Effie on 2009-04-22 08:45:19 as along with 4 people and 1 group abhishek_tiwari nuin guhjy dullhunk NaCTeM
	GeneWays: a system for extracting, analyzing, visualizing, and integrating molecular pathway data. [My Copy] J Biomed Inform, Vol. 37, No. 1. (February 2004), pp. 43-53. by A. Rzhetsky, I. Iossifov, T. Koike, et al.M. Krauthammer, P. Kra, M. Morris, H. Yu, P. A. Duboué, W. Weng, W. J. Wilbur, V. Hatzivassiloglou, C. Friedman posted to extraction pathway visualisation by Effie on 2009-04-18 02:51:48 as along with 5 people and 3 groups yas wnpx zlu bundschu bhaddow NaCTeM T_lab generif_paper
	TileBars: visualization of term distribution information in full text information access [My Copy] In CHI '95: Proceedings of the SIGCHI conference on Human factors in computing systems (1995), pp. 59-66. by Marti A. Hearst posted to visualisation by Effie on 2009-04-18 02:49:45 as along with 7 people and 1 group borkurdotnet marlar takeha-e yas codex indratmo fryanpan T_lab
	Fast max-margin clustering for unsupervised word sense disambiguation in biomedical texts [My Copy] BMC Bioinformatics, Vol. 10, No. Suppl 3. (2009), S4. by Weisi Duan, Min Song, Alexander Yates posted to wsd by Effie on 2009-04-18 02:40:17 as along with 1 person and 1 group mitko NaCTeM
	Facts from text: can text mining help to scale-up high-quality manual curation of gene products with ontologies? [My Copy] Brief Bioinform, Vol. 9, No. 6. (1 November 2008), pp. 466-478. by Rainer Winnenburg, Thomas Wachter, Conrad Plake, Andreas Doms, Michael Schroeder posted to curation textmining by Effie on 2009-04-18 02:32:40 as along with 7 people and 1 group daforerog abhishek_tiwari Keywan skap guhjy Cortel druvus NaCTeM
	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 annotation ppi by Effie on 2009-04-18 02:31:36 as along with 2 people and 1 group satre farzanehs NaCTeM
	PreBIND and Textomy--mining the biomedical literature for protein-protein interactions using a support vector machine. [My Copy] BMC Bioinformatics, Vol. 4 (27 March 2003) by I. Donaldson, J. Martin, B. de Bruijn, et al.C. Wolting, V. Lay, B. Tuekam, S. Zhang, B. Baskin, G. D. Bader, K. Michalickova, T. Pawson, C. W. Hogue posted to ppi by Effie on 2009-04-18 02:30:33 as along with 5 people and 2 groups henk-cul chad_davis blackbart satre bouncingbudha dbmi-nlp NaCTeM
	BIOSMILE: A semantic role labeling system for biomedical verbs using a maximum-entropy model with automatically generated template features [My Copy] BMC Bioinformatics, Vol. 8 (01 September 2007), 325. by Richard T. Tsai, Wen-Chi Chou, Ying-Shan Su, et al.Yu-Chun Lin, Cheng-Lung Sung, Hong-Jie Dai, Irene T. Yeh, Wei Ku, Ting-Yi Sung, Wen-Lian Hsu posted to labeling role semantic by Effie on 2009-04-18 02:27:32 as along with 6 people and 2 groups vlachmore yas mircea Barend guhjy irenas NaCTeM T_lab
	An intelligent search engine and GUI-based efficient MEDLINE search tool based on deep syntactic parsing [My Copy] In Proceedings of the COLING/ACL on Interactive presentation sessions (2006), pp. 17-20. by Tomoko Ohta, Yoshimasa Tsuruoka, Jumpei Takeuchi, et al.Jin-Dong Kim, Yusuke Miyao, Akane Yakushiji, Kazuhiro Yoshida, Yuka Tateisi, Takashi Ninomiya, Katsuya Masuda, Tadayoshi Hara, Jun'ichi Tsujii posted to parsing search by Effie on 2009-04-18 02:25:40 as along with 2 people and 1 group yas mircea NaCTeM
	Semantic retrieval for the accurate identification of relational concepts in massive textbases [My Copy] In ACL '06: Proceedings of the 21st International Conference on Computational Linguistics and the 44th annual meeting of the ACL (2006), pp. 1017-1024. by Yusuke Miyao, Tomoko Ohta, Katsuya Masuda, et al.Yoshimasa Tsuruoka, Kazuhiro Yoshida, Takashi Ninomiya, Jun'ichi Tsujii posted to parsing relations search by Effie on 2009-04-18 02:24:56 as along with 2 people and 1 group yas mircea NaCTeM
	PubMed related articles: a probabilistic topic-based model for content similarity [My Copy] BMC Bioinformatics, Vol. 8, No. 1. (2007) by Jimmy Lin, John W. Wilbur posted to content similarity by Effie on 2009-04-18 02:23:56 as along with 9 people and 1 group artaban421 jarek guhjy dullhunk msampson Gaetan barriot A_Hoogendam yas NaCTeM
	MiSearch Adaptive PubMed Search Tool. [My Copy] Bioinformatics (6 March 2008) by David J J. States, Alex S S. Ade, Zachary C C. Wright, Aaron V V. Bookvich, Brian D D. Athey posted to search by Effie on 2009-04-18 02:23:16 as along with 4 people and 1 group guhjy dullhunk Gaetan yas NaCTeM
	The strength of co-authorship in gene name disambiguation [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (29 January 2008), 69. by Richard Farkas posted to disambiguartion entities by Effie on 2009-04-18 02:21:45 as along with 3 people and 1 group martingerner akastrin yas NaCTeM
	Anne O'Tate: A tool to support user-driven summarization, drill-down and browsing of PubMed search results [My Copy] Journal of Biomedical Discovery and Collaboration, Vol. 3 (15 February 2008), 2. by Neil R. Smalheiser, Wei Zhou, Vetle I. Torvik posted to pubmed summarisation by Effie on 2009-04-18 02:21:03 as along with 7 people and 1 group mitko A_Hoogendam Enro guhjy Gaetan spinaltap526 yas NaCTeM
	A critical review of PASBio's argument structures for biomedical verbs [My Copy] BMC Bioinformatics, Vol. 7, No. Suppl 3. (2006) by Bretonnel K. Cohen, Lawrence Hunter posted to relation role semantic by Effie on 2009-04-18 02:19:47 as along with 2 people and 1 group satre yas NaCTeM
	OpenDMAP: An open-source, ontology-driven concept analysis engine, with applications to capturing knowledge regarding protein transport, protein interactions and cell-specific gene expression [My Copy] BMC Bioinformatics, Vol. 9 (31 January 2008), 78. by Lawrence Hunter, Zhiyong Lu, James Firby, et al.William A. Baumgartner, Helen L. Johnson, Philip V. Ogren, Bretonnel K. Cohen posted to biocreative ontology by Effie on 2009-04-18 02:17:16 as along with 6 people and 2 groups druvus sobolevnrm thomaskelder guhjy satre yas NaCTeM baker-group
	Seeking a new biology through text mining. [My Copy] Cell, Vol. 134, No. 1. (11 July 2008), pp. 9-13. by Andrey Rzhetsky, Michael Seringhaus, Mark Gerstein posted to data deluge by Effie on 2009-04-18 02:16:29 as along with 18 people and 2 groups artaban421 daforerog thegoose2 Scis0000002 martingerner pick600 lesikv ajaymalik cisevol jfr yas icq242500260 pzoot guhjy bootsy fgibson dullhunk tharris NaCTeM BergmanLab
	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 normalisation by Effie on 2009-04-18 02:15:35 as along with 3 people and 2 groups henk-cul vlachmore yas NaCTeM dbmi-nlp
	Using MEDLINE as a knowledge source for disambiguating abbreviations and acronyms in full-text biomedical journal articles. [My Copy] J Biomed Inform (7 June 2006) by Hong Yu, Won Kim, Vasileios Hatzivassiloglou, W John J. Wilbur posted to acronym dictionary disambiguartion by Effie on 2009-04-18 02:14:42 as along with 3 people and 2 groups yas helliontroy Gaetan NaCTeM biomedical-nlp
	Learning to extract relations for protein annotation. [My Copy] Bioinformatics (Oxford, England), Vol. 23, No. 13. (1 July 2007) by J. H. Kim, A. Mitchell, T. K. Attwood, M. Hilario posted to annotation extraction by Effie on 2009-04-18 02:13:53 as along with 3 people and 2 groups eesruiz robert85 yas ImagCom - Biomedical Text Computing NaCTeM
	SaRAD: a Simple and Robust Abbreviation Dictionary. [My Copy] Bioinformatics (Oxford, England), Vol. 20, No. 4. (1 March 2004), pp. 527-533. by E. Adar posted to acronym dictionary by Effie on 2009-04-18 02:12:48 as along with 1 person and 1 group yas NaCTeM
	Building an abbreviation dictionary using a term recognition approach. [My Copy] Bioinformatics (18 October 2006) by Naoaki Okazaki, Sophia Ananiadou posted to acronym by Effie on 2009-04-18 02:12:21 as along with 2 people and 1 group yas gaudan NaCTeM
	Disambiguating Ambiguous Biomedical Terms in Biomedical Narrative Text: An Unsupervised Method [My Copy] Journal of Biomedical Informatics, Vol. 34, No. 4. (August 2001), pp. 249-261. by Hongfang Liu, Yves A. Lussier, Carol Friedman posted to acronym disambiguartion by Effie on 2009-04-18 02:11:56 as along with 2 people and 1 group yas akastrin NaCTeM
	Creating an online dictionary of abbreviations from MEDLINE. [My Copy] J Am Med Inform Assoc, Vol. 9, No. 6. (c 2002), pp. 612-620. by J. T. Chang, H. Schütze, R. B. Altman posted to acronym by Effie on 2009-04-18 02:11:14 as along with 4 people and 3 groups yas irenas natsu helliontroy NaCTeM dbk-lab biomedical-nlp
	A simple algorithm for identifying abbreviation definitions in biomedical text. [My Copy] Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing (2003), pp. 451-462. by A. S. Schwartz, M. A. Hearst posted to acronym by Effie on 2009-04-18 02:10:45 as along with 2 people and 1 group martingerner yas NaCTeM
	BioCaster: detecting public health rumors with a Web-based text mining system [My Copy] Bioinformatics (15 October 2008), btn534. by Nigel Collier, Son Doan, Ai Kawazoe, et al.Reiko M. Goodwin, Mike Conway, Yoshio Tateno, Quoc-Hung Ngo, Dinh Dien, Asanee Kawtrakul, Koichi Takeuchi, Mika Shigematsu, Kiyosu Taniguchi posted to no-tag by Effie on 2009-04-18 02:09:22 as along with 6 people and 1 group ianturton yas neils rschulz sondoan Gaetan NaCTeM

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acronym	7
search	7
mining	6
semantic	6
annotation	5
disambiguartion	5
textmining	5
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term	1
uima	1
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Effie's library 129 articles Export

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