zlu's library 72 articles Export

	TransportDB: a relational database of cellular membrane transport systems. [My Copy] Nucleic Acids Res, Vol. 32, No. Database issue. (1 January 2004) by Q. Ren, K. H. Kang, I. T. Paulsen posted to ref-transloc by zlu on 2006-06-26 23:53:38 as
	A critical review of PASBio's argument structures for biomedical verbs [My Copy] In Proceedings of Semantic Mining in Biomedicine (2006) by K. B. Cohen, L. Hunter posted to ref-transloc by zlu on 2006-06-26 18:35:02 as along with 1 person and 1 group helliontroy biomedical-nlp
	Direct Memory Access Parsing [My Copy] (1991) by C. E. Martin posted to ref-transloc by zlu on 2006-06-26 18:32:32 as
	Fast Extract Inference with a Factored Model for Natural Language Parsing [My Copy] Proceedings of Advances in Neural Information Processing Systems (2002) by Dan Klein, Christopher D. Manning posted to ref-transloc by zlu on 2006-06-26 18:30:55 as
	The (Non)Utility of Predicate-Argument Frequencies for Pronoun Interpretation [My Copy] In Proceedings of the 2004 Human Language Technology Conference of the North American Chapter of the Association for Computational Linguistics (2004), pp. 289-296. by Andrew Kehler, Douglas E. Appelt, Lara Taylor, Aleksandr Simma posted to ref-transloc by zlu on 2006-06-26 18:27:22 as
	Gene name extraction using FlyBase resources [My Copy] In Proceedings of the ACL 2003 workshop on Natural language processing in biomedicine, Vol. 13 (2003), pp. 1-8. by Alex Morgan, Lynette Hirschman, Alexander Yeh, Marc Colosimo posted to ref-transloc by zlu on 2006-06-26 18:23:48 as
	GATE: A framework and graphical development environment for robust NLP tools and applications [My Copy] In Proceedings of the 40th Annual Meeting of the ACL (2002) by H. Cunningham, D. Maynard, K. Bontcheva, V. Tablan posted to ref-transloc by zlu on 2006-06-26 18:21:04 as along with 2 people ianturton tulaydemir
	BioText Team Report for the TREC 2003 Genomics Track [My Copy] In Proceedings of the Twelfth Text REtrieval Conference (2003), pp. 612-621. by G. Bhalotia, P. I. Nakov, A. S. Schwartz, M. A. Hearst posted to ref-transloc by zlu on 2006-06-26 18:13:53 as
	Extracting molecular binding relationships from biomedical text [My Copy] In Proceedings of the sixth conference on Applied natural language processing (2000), pp. 188-195. by Thomas C. Rindflesch, Jayant V. Rajan, Lawrence Hunter posted to ref-transloc by zlu on 2006-06-26 18:11:01 as
	Building embedded conceptual parsers [My Copy] (1994) by William A. Fitzgerald posted to ref-transloc by zlu on 2006-06-26 18:04:04 as
	EDGAR: extraction of drugs, genes and relations from the biomedical literature. [My Copy] Pac Symp Biocomput (2000), pp. 517-528. by T. C. Rindflesch, L. Tanabe, J. N. Weinstein, L. Hunter posted to ref-transloc by zlu on 2006-06-26 01:06:35 as along with 3 people and 2 groups svozil irenas ibuch Bioinformatics dbk-lab
	Database resources of the National Center for Biotechnology Information. [My Copy] Nucleic Acids Res, Vol. 34, No. Database issue. (1 January 2006) by D. L. Wheeler, T. Barrett, D. A. Benson, et al.S. H. Bryant, K. Canese, V. Chetvernin, D. M. Church, M. Dicuccio, R. Edgar, S. Federhen, L. Y. Geer, W. Helmberg, Y. Kapustin, D. L. Kenton, O. Khovayko, D. J. Lipman, T. L. Madden, D. R. Maglott, J. Ostell, K. D. Pruitt, G. D. Schuler, L. M. Schriml, E. Sequeira, S. T. Sherry, K. Sirotkin, A. Souvorov, G. Starchenko, T. O. Suzek, R. Tatusov, T. A. Tatusova, L. Wagner, E. Yaschenko posted to ref-transloc by zlu on 2006-06-26 01:04:57 as along with 8 people aalibes miguel kuhn dullhunk duartemolha happy_manatee jdiggans frohike
	Extraction of transcript diversity from scientific literature. [My Copy] PLoS Comput Biol, Vol. 1, No. 1. (June 2005) by P. K. Shah, L. J. Jensen, S. Boué, P. Bork posted to blp-ie ref-transloc by zlu on 2006-06-26 01:02:40 as along with 3 people and 1 group Cortel yas larsjuhljensen T_lab
	TCDB: the Transporter Classification Database for membrane transport protein analyses and information. [My Copy] Nucleic Acids Res, Vol. 34, No. Database issue. (1 January 2006) by M. H. Saier, C. V. Tran, R. D. Barabote posted to ref-transloc by zlu on 2006-06-26 01:00:40 as along with 1 person cgaugain
	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 ref-transloc by zlu on 2006-06-26 00:54:30 as along with 5 people and 3 groups Effie yas wnpx bundschu bhaddow NaCTeM T_lab generif_paper
	Robust relational parsing over biomedical literature: extracting inhibit relations. [My Copy] Pac Symp Biocomput (2002), pp. 362-373. by J. Pustejovsky, J. Castaño, J. Zhang, M. Kotecki, B. Cochran posted to blp-ie ref-transloc by zlu on 2006-06-26 00:51:58 as along with 4 people and 3 groups artaban421 henk-cul pault helliontroy dbmi-nlp NaCTeM biomedical-nlp
	A pragmatic information extraction strategy for gathering data on genetic interactions. [My Copy] Proc Int Conf Intell Syst Mol Biol, Vol. 8 (2000), pp. 279-285. by D. Proux, F. Rechenmann, L. Julliard posted to ref-transloc by zlu on 2006-06-26 00:50:22 as
	Automated extraction of information on protein-protein interactions from the biological literature. [My Copy] Bioinformatics, Vol. 17, No. 2. (February 2001), pp. 155-161. by T. Ono, H. Hishigaki, A. Tanigami, T. Takagi posted to blp-ie ref-transloc by zlu on 2006-06-26 00:48:52 as along with 9 people and 4 groups pault arafalov irenas yas blackbart helliontroy bundschu satre yggdrasil NaCTeM T_lab biomedical-nlp generif_paper
	Beyond the clause: extraction of phosphorylation information from medline abstracts. [My Copy] Bioinformatics, Vol. 21 Suppl 1 (1 June 2005) by M. Narayanaswamy, K. E. Ravikumar, K. Vijay-Shanker posted to blp-ie ref-transloc by zlu on 2006-06-26 00:47:37 as along with 3 people Enro miguel neils
	Textpresso: an ontology-based information retrieval and extraction system for biological literature. [My Copy] PLoS biology, Vol. 2, No. 11. (November 2004) by H. M. Müller, E. E. Kenny, P. W. Sternberg posted to ref-transloc by zlu on 2006-06-26 00:43:27 as along with 16 people and 4 groups artaban421 mitko thegoose2 liblab tharris irenas Enro guhjy yas dullhunk hpiwowar fisherp daniel_schober diogomartins mroos vlachmore C. elegans / WormBase dbk-lab T_lab AID
	Speech and Language Processing: An Introduction to Natural Language Processing, Computational Linguistics and Speech Recognition (Prentice Hall Series in Artificial Intelligence) [My Copy] (05 January 2000) by Daniel Jurafsky, James H. Martin posted to ref-transloc by zlu on 2006-06-26 00:41:15 as along with 12 people and 1 group pengyifan eddymier leidner metropol caporaso bigbossman matwendt aklassen mircea asterix77 spinaltap526 quianominorleo biomedical-nlp
	Natural Language Processing for Online Applications: Text Retrieval, Extraction, and Categorization (Natural Language Processing) [My Copy] by Peter Jackson, Isabelle Moulinier posted to ref-transloc by zlu on 2006-06-26 00:40:18 as
	Automated extraction of mutation data from the literature: application of MuteXt to G protein-coupled receptors and nuclear hormone receptors. [My Copy] Bioinformatics, Vol. 20, No. 4. (1 March 2004), pp. 557-568. by F. Horn, A. L. Lau, F. E. Cohen posted to blp-ie ref-transloc by zlu on 2006-06-26 00:38:40 as along with 3 people and 1 group yuslinaz bqchinh yas T_lab
	Literature mining and database annotation of protein phosphorylation using a rule-based system [My Copy] Bioinformatics, Vol. 21, No. 11. (1 June 2005), pp. 2759-2765. by Z. Z. Hu, M. Narayanaswamy, K. E. Ravikumar, K. Vijay-Shanker, C. H. Wu posted to blp-ie ref-transloc by zlu on 2006-06-26 00:37:25 as along with 3 people benny jacky957 satre
	Two biomedical sublanguages: a description based on the theories of Zellig Harris. [My Copy] J Biomed Inform, Vol. 35, No. 4. (August 2002), pp. 222-235. by C. Friedman, P. Kra, A. Rzhetsky posted to ref-transloc by zlu on 2006-06-26 00:36:18 as along with 1 person and 1 group irenas dbk-lab
	UIMA: an architectural approach to unstructured information processing in the corporate research environment [My Copy] Nat. Lang. Eng., Vol. 10, No. 3-4. (2004), pp. 327-348. by David Ferrucci, Adam Lally posted to ref-transloc by zlu on 2006-06-26 00:34:07 as along with 2 people N-te_Jr yggdrasil
	The Biomolecular Interaction Network Database and related tools 2005 update. [My Copy] Nucleic Acids Res, Vol. 33, No. Database issue. (1 January 2005) by C. Alfarano, C. E. Andrade, K. Anthony, et al.N. Bahroos, M. Bajec, K. Bantoft, D. Betel, B. Bobechko, K. Boutilier, E. Burgess, K. Buzadzija, R. Cavero, C. D'Abreo, I. Donaldson, D. Dorairajoo, M. J. Dumontier, M. R. Dumontier, V. Earles, R. Farrall, H. Feldman, E. Garderman, Y. Gong, R. Gonzaga, V. Grytsan, E. Gryz, V. Gu, E. Haldorsen, A. Halupa, R. Haw, A. Hrvojic, L. Hurrell, R. Isserlin, F. Jack, F. Juma, A. Khan, T. Kon, S. Konopinsky, V. Le, E. Lee, S. Ling, M. Magidin, J. Moniakis, J. Montojo, S. Moore, B. Muskat, I. Ng, J. P. Paraiso, B. Parker, G. Pintilie, R. Pirone, J. J. Salama, S. Sgro, T. Shan, Y. Shu, J. Siew, D. Skinner, K. Snyder, R. Stasiuk, D. Strumpf, B. Tuekam, S. Tao, Z. Wang, M. White, R. Willis, C. Wolting, S. Wong, A. Wrong, C. Xin, R. Yao, B. Yates, S. Zhang, K. Zheng, T. Pawson, B. F. Ouellette, C. W. Hogue posted to ref-transloc by zlu on 2006-06-26 00:29:58 as along with 7 people and 3 groups hardi alaninmcr yas balajis frohike dagmar dragonrez T_lab dIEMoSIRIS compneur
	ProMiner: rule-based protein and gene entity recognition [My Copy] BMC Bioinformatics, Vol. 6, No. Suppl 1. (2005), S14. by Daniel Hanisch, Katrin Fundel, Heinz T. Mevissen, Ralf Zimmer, Juliane Fluck posted to blp-biocreative by zlu on 2006-06-14 22:52:00 as along with 6 people and 2 groups robert85 eesruiz chad_davis yas incovoma TheresaNiederberger ImagCom - Biomedical Text Computing T_lab
	Automatic Extraction of Biological Information from Scientific Text: Protein-Protein Interactions [My Copy] In Proceedings of the Seventh International Conference on Intelligent Systems for Molecular Biology (1999), pp. 60-67. by Christian Blaschke, Miguel A. Andrade, Christos Ouzounis, Alfonso Valencia posted to ref-corpus by zlu on 2006-06-10 00:40:03 as
	Tagging gene and protein names in biomedical text. [My Copy] Bioinformatics, Vol. 18, No. 8. (August 2002), pp. 1124-1132. by L. Tanabe, W. J. Wilbur posted to ref-corpus ref-transloc by zlu on 2006-06-09 23:29:42 as along with 9 people and 4 groups eesruiz cisevol irenas jelsas fisherp bundschu flint johnkork gaudan ImagCom - Biomedical Text Computing BergmanLab dbk-lab generif_paper
	ABNER: an open source tool for automatically tagging genes, proteins, and other entity names in text. [My Copy] Bioinformatics (28 April 2005) by Burr Settles posted to ref-corpus ref-transloc by zlu on 2006-06-09 23:29:13 as along with 1 person and 1 group irenas dbk-lab
	Medstract: creating large-scale information servers for biomedical libraries [My Copy] In Proceedings of the ACL-02 workshop on Natural language processing in the biomedical domain (2002), pp. 85-92. by J. Pustejovsky, J. Casta&\#241;o, R. Saur&\#237;, A. Rumshinsky, J. Zhang, W. Luo posted to ref-corpus by zlu on 2006-06-09 23:28:37 as
	The Proposition Bank: An Annotated Corpus of Semantic Roles [My Copy] Comput. Linguist., Vol. 31, No. 1. (March 2005), pp. 71-106. by Martha Palmer, Daniel Gildea, Paul Kingsbury posted to ref-corpus by zlu on 2006-06-09 23:27:35 as along with 8 people and 2 groups kvorg jo-hannes garyfeng grzegorz facopad adastra student_t tulaydemir NLP ReadingLab
	A biological named entity recognizer. [My Copy] Pac Symp Biocomput (2003), pp. 427-438. by M. Narayanaswamy, K. E. Ravikumar, K. Vijay-Shanker posted to ref-corpus by zlu on 2006-06-09 23:24:32 as along with 1 person and 1 group arafalov Named Entity Recognition
	Protein names and how to find them. [My Copy] Int J Med Inform, Vol. 67, No. 1-3. (4 December 2002), pp. 49-61. by K. Franzén, G. Eriksson, F. Olsson, L. Asker, P. Lidén, J. Cöster posted to ref-corpus by zlu on 2006-06-09 23:15:52 as along with 2 people and 1 group irenas gaudan dbk-lab
	Mining MEDLINE: abstracts, sentences, or phrases? [My Copy] Pac Symp Biocomput (2002), pp. 326-337. by J. Ding, D. Berleant, D. Nettleton, E. Wurtele posted to ref-corpus ref-transloc by zlu on 2006-06-09 23:14:12 as along with 4 people and 2 groups yas bundschu satre ianturton T_lab generif_paper
	Toward information extraction: identifying protein names from biological papers. [My Copy] Pac Symp Biocomput (1998), pp. 707-718. by K. Fukuda, A. Tamura, T. Tsunoda, T. Takagi posted to ref-corpus ref-transloc by zlu on 2006-06-09 23:12:43 as along with 3 people and 2 groups caporaso bundschu johnkork biomedical-nlp generif_paper
	Extracting human protein interactions from MEDLINE using a full-sentence parser. [My Copy] Bioinformatics, Vol. 20, No. 5. (22 March 2004), pp. 604-611. by N. Daraselia, A. Yuryev, S. Egorov, S. Novichkova, A. Nikitin, I. Mazo posted to ref-corpus ref-transloc by zlu on 2006-06-09 23:08:40 as along with 8 people and 2 groups henk-cul liblab bqchinh irenas Enro miguel natsu satre dbmi-nlp dbk-lab
	Protein Targetting, Transport, and Translocation [My Copy] (30 September 2001) by R. E. Dalbey, Gunnar Von Heijne posted to ref-corpus ref-transloc by zlu on 2006-06-09 23:07:47 as
	Constructing Biological Knowledge Bases by Extracting Information from Text Sources [My Copy] In Proceedings of the Seventh International Conference on Intelligent Systems for Molecular Biology (1999), pp. 77-86. by Mark Craven, Johan Kumlien posted to ref-corpus by zlu on 2006-06-09 23:04:27 as
	The GENIA Project: Corpus-based Knowledge Acquisition and Information Extraction from Genome Research Papers [My Copy] In Proceedings of EACL 99 (1999), pp. 271-272. by N. Collier, H. Park, N. Ogata, et al.Y. Tateisi, C. Nobata, T. Ohta, T. Sekimizu, H. Imai, K. Ibushi, J. Tsujii posted to ref-corpus by zlu on 2006-06-09 22:55:15 as
	Gene Ontology: tool for the unification of biology [My Copy] Nature Genetics, Vol. 25, No. 1. (01 May 2000), pp. 25-29. by M. Ashburner, C. A. Ball, J. A. Blake, et al.D. Botstein, H. Butler, J. M. Cherry, A. P. Davis, K. Dolinski, S. S. Dwight, J. T. Eppig, M. A. Harris, D. P. Hill, L. Issel-Tarver, A. Kasarskis, S. Lewis, J. C. Matese, J. E. Richardson, M. Ringwald, G. M. Rubin, G. Sherlock posted to ref-corpus ref-transloc by zlu on 2006-06-09 22:46:23 as along with 76 people and 8 groups suizan sanchezbuelna Jporci artaban421 mtaschuk niallhaslam Zephyrus nicklynch mauriceccy pmendes jperkins timhubbard ipark-kaist jeremymiller vkwn MarcoAlvarez humburg mqbphcw3 kiekyon karinlag ocs marti robert85 allysonlister daforerog chasmand lawraga jorisslob bertelsen mshossain ajbattle paszkows coela fbristow kshameer anthropomorphism nolodie dagmar Robinder verdicchio raistrick vertikalist aalibes miguel dragonrez lfriedl chad_davis yas balajis indigoviolet benny dullhunk nirfriedman fisherp caporaso helliontroy gurkanbebek djkt massivemayhem incovoma leechuck aconesa sgoetz javamint bootsy PunkRock natstreet naegele CitoJam pablomendes carlk marck dgront roys rvosa fongenae 8_01 BTS-PT-AS-CS kdl Bioinformatics EisenLab T_lab biomedical-nlp FAB-lab
	Molecular Biology of the Cell, Fourth Edition [My Copy] (2002) by Bruce Alberts, Alexander Johnson, Julian Lewis, Martin Raff, Keith Roberts, Peter Walter posted to ref-corpus ref-transloc by zlu on 2006-06-09 22:44:14 as along with 6 people and 3 groups aprasad reyez rhem1224 cwbrown larios dherkova EisenLab TCR_Signaling SysbioMPI-TCells
	A system for identifying named entities in biomedical text: how results from two evaluations reflect on both the system and the evaluations [My Copy] Comparative and Functional Genomics, Vol. 6, No. 1-2. (February 2005), pp. 77-85. by Dingare Shipra, Nissim Malvina, Finkel Jenny, Manning Christopher, Grover Claire posted to blp-biocreative by zlu on 2006-06-05 20:26:15 as
	Automatically annotating documents with normalized gene lists. [My Copy] BMC Bioinformatics, Vol. 6 Suppl 1 (2005) by J. Crim, R. McDonald, F. Pereira posted to blp-biocreative by zlu on 2006-05-22 16:28:22 as along with 3 people and 1 group eesruiz oannes vlachmore Regulomics_UCHSC
	PASBio: predicate-argument structures for event extraction in molecular biology. [My Copy] BMC Bioinformatics, Vol. 5 (19 October 2004) by T. Wattarujeekrit, P. K. Shah, N. Collier posted to ref-corpus ref-transloc by zlu on 2006-05-11 18:38:24 as along with 5 people and 2 groups yas caporaso helliontroy johnkork mircea T_lab biomedical-nlp
	Finding GeneRIFs via GO Annotations [My Copy] In Proceedings of PSB 2006 (2006), pp. 52-61. by Zhiyong Lu, Kevin B. Cohen, Lawrence Hunter posted to blp-summarization ref-corpus ref-transloc by zlu on 2006-05-09 23:57:54 as
	Integrated annotation for biomedical information extraction [My Copy] In Proceedings of the BioLINK 2004 (2004) by K. Seth, A. Bies, M. Liberman, et al.M. Mandel, R. Mcdonald, M. Palmer, A. Schein posted to blp-annotation ref-corpus by zlu on 2006-04-30 23:13:59 as along with 2 people and 1 group helliontroy balex biomedical-nlp
	Creating Semantic Web Contents with Protege-2000 [My Copy] IEEE Intelligent Systems, Vol. 2, No. 16. (2001), pp. 60-71. by Natalya F. Noy, Michael Sintek, Stefan Decker, Monica Crubezy, Ray W. Fergerson, Mark A. Musen posted to blp-annotation ref-corpus ref-transloc by zlu on 2006-04-30 22:51:03 as
	Evaluation of BioCreAtIvE assessment of task 2. [My Copy] BMC Bioinformatics, Vol. 6 Suppl 1 (2005) by C. Blaschke, E. A. Leon, M. Krallinger, A. Valencia posted to blp-biocreative by zlu on 2006-04-30 22:01:24 as along with 4 people and 2 groups leechuck yas helliontroy yggdrasil T_lab biomedical-nlp