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caporaso nlp [73 articles]

Recent papers added to caporaso library classified by the tag nlp. You can also see everyone's nlp.
  • Automatic Extraction of Protein Point Mutations Using a Graph Bigram Association
    PLoS Computational Biology, Vol. 3, No. 2. (1 February 2007), e16.
    by Lawrence C Lee, Florence Horn, Fred E Cohen
    posted to mutation nlp by caporaso on 2007-04-17 17:36:43 as read along with 2 people and 2 groups aalibes yas T_lab biomedical-nlp
  • Text-mining and information-retrieval services for molecular biology.
    Genome Biol, Vol. 6, No. 7. (2005)
    by M Krallinger, A Valencia
    posted to bioinformatics nlp by caporaso on 2007-04-17 03:53:19 as **** along with 8 people and 6 groups spinaltap526 irenas Enro carlblesius textoris yas shimah78us cjeans dbk-lab Blog_and_Wiki_Research mgh-lcs hst-bmi T_lab biomedical-nlp
  • BioCreAtIvE task 1A: gene mention finding evaluation.
    BMC Bioinformatics, Vol. 6 Suppl 1 (2005)
    by A Yeh, A Morgan, M Colosimo, L Hirschman
    posted to biomedical nlp by caporaso on 2006-12-04 05:35:49 as ***** along with 4 people and 2 groups yas helliontroy zlu johnkork T_lab biomedical-nlp
  • Concept Recognition, Information Retrieval, and Machine Learning in Genomics Question-Answering
    (2006)
    by Gregory J Caporaso, William A Baumgartner, Hyunmin Kim, Zhiyong Lu, Helen L Johnson, Olga Medvedeva, Anna Lindemann, Lynne M Fox, Elizabeth K White, Bretonnel K Cohen, Lawrence Hunter
    posted to biomedical data-mining hunter-lab nlp by caporaso on 2006-12-04 05:00:33 as ** along with 1 person and 1 group helliontroy biomedical-nlp
  • TREC 2006 Genomics Track Overview
    (2006)
    by William Hersh, Aaron M Cohen, Phoebe Roberts, Hari K Rekapalli
    posted to biomedical data-mining nlp by caporaso on 2006-12-04 04:52:51 as read along with 1 group biomedical-nlp
  • Relevance based language models
    (2001), pp. 120-127.
    by Victor Lavrenko, Bruce W Croft
    posted to information-retrieval nlp by caporaso on 2006-10-25 02:14:46 as ** along with 7 people and 3 groups iansimon codex jelsas arjen ejmeij abellogin spinaltap526 biomedical-nlp ilps LanguageModeling
  • Zone Identification in Biology Articles as a Basis for Information Extraction
    (2004), pp. 29-35.
    by Y Mizuta, N Collier
    posted to nlp zone by caporaso on 2006-10-25 00:30:26 as ** along with 1 group biomedical-nlp
  • A baseline feature set for learning rhetorical zones using full articles in the biomedical domain
    SIGKDD Explor. Newsl., Vol. 7, No. 1. (June 2005), pp. 52-58.
    by Tony Mullen, Yoko Mizuta, Nigel Collier
    posted to nlp zone by caporaso on 2006-10-25 00:27:30 as ** along with 2 people and 2 groups yas helliontroy T_lab biomedical-nlp
  • Rule-based extraction of experimental evidence in the biomedical domain: the KDD Cup 2002 (task 1)
    SIGKDD Explor. Newsl., Vol. 4, No. 2. (December 2002), pp. 90-92.
    by Yizhar Regev, Michal Finkelstein-Landau, Ronen Feldman
    posted to nlp zone by caporaso on 2006-10-25 00:26:05 as ** along with 2 people and 2 groups yas balicea T_lab biomedical-nlp
  • Gene ontology: tool for the unification of biology. The Gene Ontology Consortium.
    Nat Genet, Vol. 25, No. 1. (May 2000), pp. 25-29.
    by M Ashburner, CA Ball, JA Blake, D Botstein, H Butler, JM Cherry, AP Davis, K Dolinski, SS Dwight, JT Eppig, MA Harris, DP Hill, L Issel-Tarver, A Kasarskis, S Lewis, JC Matese, JE Richardson, M Ringwald, GM Rubin, G Sherlock
    posted to bioinformatics nlp by caporaso on 2006-10-24 19:09:35 as read along with 34 people and 6 groups fongenae rvosa roys dgront marck carlk pablomendes CitoJam aalibes miguel dragonrez lfriedl chad_davis yas balajis indigoviolet benny dullhunk nirfriedman fisherp helliontroy zlu gurkanbebek djkt massivemayhem incovoma leechuck aconesa sgoetz javamint bootsy PunkRock natstreet naegele FAB-lab kdl Bioinformatics EisenLab T_lab biomedical-nlp
  • A gene network for navigating the literature.
    Nat Genet, Vol. 36, No. 7. (July 2004)
    by R Hoffmann, A Valencia
    posted to bioinformatics nlp by caporaso on 2006-10-24 18:55:18 as read along with 8 people and 2 groups beete Borelli frohike aalibes yas benny minostro adoms T_lab biomedical-nlp
  • OSIRIS: a tool for retrieving literature about sequence variants
    Bioinformatics, Vol. 22, No. 20. (15 October 2006), pp. 2567-2569.
    by Julio Bonis, Laura I Furlong, Ferran Sanz
    posted to mutation nlp by caporaso on 2006-10-10 21:53:51 as read along with 2 people and 1 group jyuh ibuch biomedical-nlp
  • Mutation Mining—A Prospector's Tale
    Journal of Information Systems Frontiers, Vol. 8, No. 1. (February 2006), pp. 47-57.
    by Christopher JO Baker, René Witte
    posted to data-mining mutation nlp structural-biology by caporaso on 2006-09-12 19:32:26 as read along with 1 group biomedical-nlp
  • Combining evidence, biomedical literature and statistical dependence: new insights for functional annotation of gene sets.
    BMC Bioinformatics, Vol. 7, No. 1. (4 May 2006)
    by Marc Aubry, Annabelle Monnier, Celine Chicault, Marie de Tayrac, Marie-Dominique D Galibert, Anita Burgun, Jean Mosser
    posted to clustering data-mining function major-proposal nlp protein by caporaso on 2006-09-06 21:05:29 as ***** along with 5 people and 4 groups yggdrasil irenas yas dullhunk kkaiser dbk-lab T_lab biomedical-nlp IEG
  • Meta-analysis of published transcriptional and translational fold changes reveals a preference for low-fold inductions.
    OMICS, Vol. 10, No. 1. (2006), pp. 15-27.
    by JD Wren, T Conway
    posted to bioinformatics biomedical data-mining function nlp by caporaso on 2006-09-06 21:01:29 as ** along with 1 group biomedical-nlp
  • Facts from text-is text mining ready to deliver?
    PLoS Biol, Vol. 3, No. 2. (February 2005)
    by D Rebholz-Schuhmann, H Kirsch, F Couto
    posted to biomedical data-mining nlp by caporaso on 2006-08-30 19:49:43 as read along with 13 people and 3 groups hpiwowar jfr snuppepuppan irenas yas dullhunk t11 onca dgront shimah78us daniel_schober dejori adoms dbk-lab T_lab biomedical-nlp
  • Automatic extraction of mutations from Medline and cross-validation with OMIM
    Nucl. Acids Res., Vol. 32, No. 1. (2 January 2004), pp. 135-142.
    by Dietrich Rebholz-Schuhmann, Stephane Marcel, Sylvie Albert, Ralf Tolle, Georg Casari, Harald Kirsch
    posted to comps major-proposal mutation nlp protein by caporaso on 2006-08-30 19:46:33 as read along with 3 people and 2 groups Enro yas t11 T_lab biomedical-nlp
  • Analyzing Entities and Topics in News Articles Using Statistical Topic Models
    Lecture Notes in Computer Science, Vol. 3975 (January 2006), pp. 93-104.
    by David Newman, Chaitanya Chemudugunta, Padhraic Smyth, Mark Steyvers
    posted to cs nlp topic-modeling by caporaso on 2006-08-01 23:16:36 as ***** along with 2 people and 1 group tkmosk codex biomedical-nlp
  • HubMed: a web-based biomedical literature search interface.
    Nucleic Acids Res, Vol. 34, No. Web Server issue. (1 July 2006)
    by AD Eaton
    posted to biomedical nlp by caporaso on 2006-07-31 19:44:34 as ***** along with 6 people and 2 groups jyuh dayjm dullhunk kengg MarkLaurent adoms biomedical-nlp Plantandetc
  • Combination of text-mining algorithms increases the performance.
    Bioinformatics (9 June 2006)
    by Rainer Malik, Lude Franke, Arno Siebes
    posted to biomedical nlp by caporaso on 2006-07-31 19:38:23 as **** along with 7 people and 4 groups soramame_0518 snuppepuppan irenas jyuh yas fisherp markymaypo dbk-lab T_lab biomedical-nlp ARTFL
  • Exploring supervised and unsupervised methods to detect topics in biomedical text
    BMC Bioinformatics, Vol. 7, No. 1. (2006)
    by Minsuk Lee, Weiqing Wang, Hong Yu
    posted to biomedical nlp topic-modeling by caporaso on 2006-07-31 19:33:10 as ** along with 3 people and 3 groups yas chirayu_kong markymaypo T_lab biomedical-nlp ARTFL
  • Literature mining for the biologist: from information retrieval to biological discovery
    Nature Reviews Genetics, Vol. 7, No. 2. (2006), pp. 119-129.
    by Lars J Jensen, Jasmin Saric, Peer Bork
    posted to biomedical nlp by caporaso on 2006-07-31 16:34:45 as **** along with 25 people and 3 groups satre ibuch akastrin skumagai TheresaNiederberger Enro jyuh kuhn yas dullhunk hpiwowar dgront zlu jacky957 lynnefox jdiggans cjeans ghattem michaelmampaey dejori jandot mircea farzanehs larsjuhljensen adoms T_lab biomedical-nlp ADMiRes
  • Unsupervised learning of natural languages.
    Proc Natl Acad Sci U S A, Vol. 102, No. 33. (16 August 2005), pp. 11629-11634.
    by Z Solan, D Horn, E Ruppin, S Edelman
    posted to bioinformatics nlp by caporaso on 2006-06-21 21:22:03 as **** along with 20 people and 10 groups irenas parmentierf ansobol apaydin jrw garyfeng aufrank marimo grzegorz yas briordan Kevembuangga proportional paulclinger katja awarlau monster soramame_0518 hukkinen gaber dbk-lab ReadingLab ur-cls MathBio Impending_AI_breakthrough T_lab biomedical-nlp social_navigation ilps ahat
  • Assessing thesaurus-based query expansion using the UMLS Metathesaurus.
    Proc AMIA Symp (2000), pp. 344-348.
    by W Hersh, S Price, L Donohoe
    posted to biomedical nlp query-expansion by caporaso on 2006-06-21 21:08:56 as **** along with 1 person and 2 groups yas T_lab biomedical-nlp
  • Statistical modeling of biomedical corpora: mining the Caenorhabditis Genetic Center Bibliography for genes related to life span.
    BMC Bioinformatics, Vol. 7, No. 1. (8 May 2006)
    by D M Blei, K Franks, M I Jordan, I S Mian
    posted to machine-learning nlp by caporaso on 2006-06-21 16:39:11 as ***** along with 3 people and 4 groups irenas yas oannes dbk-lab T_lab biomedical-nlp Regulomics_UCHSC
  • From paragraph to graph: latent semantic analysis for information visualization.
    Proc Natl Acad Sci USA, Vol. 101 Suppl 1 (6 April 2004), pp. 5214-5219.
    by TK Landauer, D Laham, M Derr
    posted to feature-selection machine-learning nlp by caporaso on 2006-06-16 18:46:15 as ***** along with 3 people and 2 groups yas mthomure hirachi T_lab biomedical-nlp
  • Effective Mapping of Biomedical Text to the UMLS Metathesaurus: The MetaMap Program
    (2001), pp. 17-21.
    by A Aronson
    posted to nlp ontology by caporaso on 2006-06-13 18:28:21 as read along with 1 group biomedical-nlp
  • Hierarchical structures induce long-range dynamical correlations in written texts
    PNAS, Vol. 103, No. 21. (2006), pp. 7956-7961.
    by Alvarez E Lacalle, B Dorow, JP Eckmann, E Moses
    posted to machine-learning nlp by caporaso on 2006-05-31 23:56:02 as ***** along with 1 group biomedical-nlp
  • Biomedical Language Processing: What's Beyond PubMed?
    Mol Cell, Vol. 21, No. 5. (3 March 2006), pp. 589-594.
    by L Hunter, KB Cohen
    posted to biomedical nlp by caporaso on 2006-05-03 16:29:49 as read along with 7 people and 3 groups satre TheresaNiederberger irenas andytseng yas hpiwowar jacky957 dbk-lab T_lab biomedical-nlp
  • notes Discovering semantic features in the literature: a foundation for building functional associations.
    BMC Bioinformatics, Vol. 7, No. 1. (26 January 2006)
    by Monica Chagoyen, Pedro Carmona-Saez, Hagit Shatkay, Jose M Carazo, Alberto Pascual-Montano
    posted to nlp reading-group by caporaso on 2006-04-21 22:40:53 as ***** along with 3 people and 3 groups yas oannes helliontroy T_lab biomedical-nlp Regulomics_UCHSC
  • Speech and Language Processing: An Introduction to Natural Language Processing, Computational Linguistics and Speech Recognition
    (26 January 2000)
    by Daniel Jurafsky, James H Martin
    posted to nlp by caporaso on 2006-04-10 20:35:50 as read along with 10 people and 1 group quianominorleo leidner metropol zlu bigbossman matwendt aklassen mircea asterix77 spinaltap526 biomedical-nlp
  • GENIA corpus--semantically annotated corpus for bio-textmining.
    Bioinformatics, Vol. 19 Suppl 1 (2003)
    by JD Kim, T Ohta, Y Tateisi, J Tsujii
    posted to biomedical nlp by caporaso on 2006-03-28 00:50:16 as read along with 7 people and 3 groups aliekens irenas zlu jacky957 bundschu johnkork leechuck dbk-lab biomedical-nlp generif_paper
  • Natural language processing and systems biology
    (16 December 2004), pp. 147-174.
    by KB Cohen, L Hunter
    edited by Werner Dubitzky, Francisco Azuaje
    posted to hunter-lab nlp by caporaso on 2006-03-27 19:18:57 as read along with 2 people and 3 groups yas bundschu T_lab biomedical-nlp generif_paper
  • Extraction of regulatory gene/protein networks from Medline.
    Bioinformatics (26 July 2005)
    by Jasmin Saric, Lars Juhl J Jensen, Rossitza Ouzounova, Isabel Rojas, Peer Bork
    posted to biomedical nlp reading-group by caporaso on 2006-03-27 17:50:43 as read along with 4 people and 1 group kuhn balajis helliontroy larsjuhljensen biomedical-nlp
  • Accomplishments and challenges in literature data mining for biology.
    Bioinformatics, Vol. 18, No. 12. (December 2002), pp. 1553-1561.
    by L Hirschman, JC Park, J Tsujii, L Wong, CH Wu
    posted to nlp by caporaso on 2006-03-26 03:36:35 as ** along with 7 people and 6 groups satre irenas Enro yas benny kehan vlachmore dbk-lab biodiversity_conservation Bioinformatics T_lab biomedical-nlp GrassBase
  • PASBio: predicate-argument structures for event extraction in molecular biology.
    BMC Bioinformatics, Vol. 5 (19 October 2004)
    by T Wattarujeekrit, PK Shah, N Collier
    posted to nlp pas reading-group by caporaso on 2006-03-26 03:28:15 as read along with 5 people and 2 groups yas helliontroy zlu johnkork mircea T_lab biomedical-nlp
  • iProLINK: an integrated protein resource for literature mining.
    Comput Biol Chem, Vol. 28, No. 5-6. (December 2004), pp. 409-416.
    by ZZ Hu, I Mani, V Hermoso, H Liu, CH Wu
    posted to nlp protein by caporaso on 2006-03-26 03:26:56 as read along with 1 person and 1 group MarkLaurent biomedical-nlp
  • Toward information extraction: identifying protein names from biological papers.
    Pac Symp Biocomput (1998), pp. 707-718.
    by K Fukuda, A Tamura, T Tsunoda, T Takagi
    posted to nlp protein by caporaso on 2006-03-26 03:24:31 as read along with 3 people and 2 groups zlu bundschu johnkork biomedical-nlp generif_paper
  • Two applications of information extraction to biological science journal articles: enzyme interactions and protein structures.
    Pac Symp Biocomput (2000), pp. 505-516.
    by K Humphreys, G Demetriou, R Gaizauskas
    posted to nlp protein structural-biology by caporaso on 2006-03-26 03:09:12 as read along with 1 person and 1 group irenas biomedical-nlp
  • Protein structures and information extraction from biological texts: the PASTA system.
    Bioinformatics, Vol. 19, No. 1. (January 2003), pp. 135-143.
    by R Gaizauskas, G Demetriou, PJ Artymiuk, P Willett
    posted to nlp protein structural-biology by caporaso on 2006-03-26 03:07:30 as read along with 3 people and 2 groups yggdrasil irenas vlachmore dbk-lab biomedical-nlp
  • Concept recognition and the TREC Genomics tasks.
    (2005)
    by Gregory J Caporaso, William A Baumgartner, Bretonnel K Cohen, Helen L Johnson, Jesse Paquette, Lawrence Hunter
    posted to nlp trec by caporaso on 2006-03-25 18:11:25 as read along with 1 group biomedical-nlp
  • Data mining from Scientific Literature
    (2005)
    by Parantu Shah
    posted to nlp protein by caporaso on 2006-03-25 17:58:38 as ***** along with 1 group biomedical-nlp
  • Evaluation of BioCreative assessment of task 2.
    BMC Bioinformatics, Vol. 6 Suppl 1 (2005)
    by Christian Blaschke, Eduardo A Leon, Martin Krallinger, Alfonso Valencia
    posted to biomedical nlp by caporaso on 2006-03-25 16:45:00 as ***** along with 1 group biomedical-nlp
  • Automatic extraction of biological information from scientific text: protein-protein interactions.
    ISMB 1999 (1999), pp. 60-67.
    by Christian Blaschke, Miguel A Andrade, Christos Ouzounis, Alfonso Valencia
    posted to biomedical nlp protein by caporaso on 2006-03-25 16:45:00 as read along with 1 group biomedical-nlp
  • Overview of BioCreative Task 1B: normalized gene lists.
    BMC Bioinformatics, Vol. 6 Suppl 1 (2005)
    by Lynette Hirschman, Marc Colosimo, Alexander Morgan, Alexander Yeh
    posted to nlp by caporaso on 2006-03-25 16:40:13 as ***** along with 1 group biomedical-nlp
  • TREC Genomics track overview.
    (2004), pp. 132-150.
    by William R Hersh, Ravi T Bhuptiraju, Laura Ross, Phoebe Johnson, Aaron M Cohen, Dale F Kraemer
    posted to bibtex-import nlp trec by caporaso on 2006-03-25 16:40:13 as ***** along with 1 group biomedical-nlp
  • TREC Genomics track overview.
    (2005)
    by W Hersh, A Cohen, J Yang, RT Bhupatiraju, P Roberts, M Herst
    edited by National I For
    posted to bibtex-import nlp trec by caporaso on 2006-03-25 16:40:13 as ***** along with 1 group biomedical-nlp
  • TREC Genomics track overview.
    (2003), pp. 14-23.
    by William Hersh, Ravi T Bhupatiraju
    posted to bibtex-import nlp trec by caporaso on 2006-03-25 16:40:13 as *** along with 1 group biomedical-nlp
  • CONSTRUE/TIS: A system for content-based indexing of a database of news stories.
    (1990), pp. 1-5.
    by Philip J Hayes, Steven P Weinstein
    posted to bibtex-import nlp by caporaso on 2006-03-25 16:40:13 as ** along with 1 group biomedical-nlp
  • GENIES: a natural-language processing system for the extraction of molecular pathways from journal articles.
    Bioinformatics, Vol. 17, No. Suppl. 1. (2001), pp. S74-S82.
    by Carol Friedman, Pauline Kra, Hong Yu, Michael Krauthammer, Andrey Rzhetsky
    posted to bibtex-import nlp by caporaso on 2006-03-25 16:40:13 as ***** along with 1 group biomedical-nlp
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