Tag curation [62 articles] Export

Recent papers classified by the tag curation.

	Supporting the curation of biological databases with reusable text mining. [My Copy] Genome informatics. International Conference on Genome Informatics, Vol. 16, No. 2. (2005), pp. 32-44. by Olivo Miotto, Tin Wee W. Tan, Vladimir Brusic posted to nn decision_trees curation bioinformatics by svozil to the group Bioinformatics on 2009-12-20 06:36:08 as along with 1 person abhishek_tiwari
	Credit where credit is due [My Copy] Nature, Vol. 462, No. 7275. (16 December 2009), pp. 825-825. posted to genome curation annotation by druvus on 2009-12-17 09:43:42 as along with 3 people and 1 group stringertheory andreassorge dullhunk Journal picks
	Annotation Error in Public Databases: Misannotation of Molecular Function in Enzyme Superfamilies [My Copy] PLoS Computational Biology In PLoS Comput Biol, Vol. 5, No. 12. (11 December 2009), e1000605. by Alexandra .. Schnoes,, Shoshana .. Brown,, Igor Dodevski,, Patricia .. Babbitt, posted to protein_sequence_databases nr_database misannotation curation curated_database computational_analysis annotation_errors by freesci on 2009-12-14 10:50:24 as along with 13 people and 2 groups kiekyon mjbell farhat engelhardt ppgardne michaelbarton fgibson svozil dullhunk neils TRHvidsten kshameer druvus Bioinformatics Journal picks
	The Negatome database: a reference set of non-interacting protein pairs. [My Copy] Nucleic acids research In Nucl. Acids Res. (17 November 2009), gkp1026. by Pawel Smialowski, Philipp Pagel, Philip Wong, et al.Barbara Brauner, Irmtraud Dunger, Gisela Fobo, Goar Frishman, Corinna Montrone, Thomas Rattei, Dmitrij Frishman, Andreas Ruepp posted to protein_protein_interactions protein_complexes physical_interactions datasets curation by freesci on 2009-12-14 10:17:14 as along with 2 people karthikraman bpcusack
	A genome-scale metabolic reconstruction of Mycoplasma genitalium, iPS189. [My Copy] PLoS computational biology, Vol. 5, No. 2. (13 February 2009), e1000285. by Patrick F. Suthers, Madhukar S. Dasika, Vinay Satish S. Kumar, Gennady Denisov, John I. Glass, Costas D. Maranas posted to systematic_approach curation computational_tools by erinmr to the group MAGEEP Doctoral Network on 2009-12-04 18:14:40 as along with 5 people michaelbarton JeremyZucker schwartzjmc Scis0000002 mycomodel
	BioDEAL: community generation of biological annotations. [My Copy] BMC medical informatics and decision making, Vol. 9 Suppl 1 (2009) by Paul Breimyer, Nathan Green, Vinay Kumar, Nagiza F. Samatova posted to semi-automation semantic-annotation nlp curation biology annotation by henk-cul to the group dbmi-nlp on 2009-12-03 14:11:58 as
	The Rat Genome Database Curators: Who, What, Where, Why [My Copy] PLoS Comput Biol, Vol. 5, No. 11. (26 November 2009), e1000582. by Mary Shimoyama, G. Thomas Hayman, Stanley J. F. Laulederkind, et al.Rajni Nigam, Timothy F. Lowry, Victoria Petri, Jennifer R. Smith, Shur-Jen Wang, Diane H. Munzenmaier, Melinda R. Dwinell, Simon N. Twigger, Howard J. Jacob, the RGD Team posted to database data curation by kshameer on 2009-12-01 03:56:24 as along with 2 people and 1 group druvus dullhunk Journal picks
	Integrating text mining into the MGI biocuration workflow [My Copy] Database, Vol. 2009, No. 0. (20 November 2009), bap019. by K. G. Dowell, M. S. McAndrews-Hill, D. P. Hill, H. J. Drabkin, J. A. Blake posted to curation by kiekyon on 2009-11-21 17:24:16 as
	How to Get the Most out of Your Curation Effort [My Copy] PLoS Comput Biol, Vol. 5, No. 5. (22 May 2009), e1000391. by Andrey Rzhetsky, Hagit Shatkay, W. John Wilbur posted to curation by daveGerrard on 2009-10-27 15:51:49 as along with 16 people and 4 groups CorinYeats abhishek_tiwari daforerog klexa lptolik kiekyon badger_master sobolevnrm druvus martingerner cisevol AlexBateman VGreiff allysonlister fgibson dullhunk Orengo Group Journal Picks baker-group BergmanLab Journal picks
	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 C. Wiegers, Allan Peter P. Davis, K. Bretonnel Cohen, Lynette Hirschman, Carolyn J. Mattingly posted to curation by Effie to the group NaCTeM on 2009-10-08 15:25:01 as along with 1 person guhjy
	Inside FlyBase: biocuration as a career. [My Copy] Fly, Vol. 3, No. 1. (r 2009), pp. 112-114. by Susan St Pierre, Peter McQuilton posted to database curation career by kshameer on 2009-10-04 14:42:06 as along with 1 person operon
	Mining chemical and biological information from the drug literature. [My Copy] Current opinion in drug discovery & development, Vol. 12, No. 3. (May 2009), pp. 376-387. by D. L. Banville posted to text-mining curation chemoinformatics by abhishek_tiwari on 2009-09-23 07:51:46 as along with 1 person liblab
	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 text-mining curation chemoinformatics by abhishek_tiwari on 2009-09-23 07:42:34 as along with 4 people and 1 group Effie nuin guhjy dullhunk NaCTeM
	Mining literature for systems biology [My Copy] Brief Bioinform, Vol. 7, No. 4. (1 December 2006), pp. 399-406. by Phoebe M. Roberts posted to text-mining systemsbiology curation by abhishek_tiwari on 2009-09-23 07:42:34 as along with 4 people and 2 groups Scis0000002 irenas yas jacky957 dbk-lab T_lab
	Mining chemical structural information from the drug literature [My Copy] Drug Discovery Today, Vol. 11, No. 1-2. (January 2006), pp. 35-42. by D. Banville posted to text-mining curation chemoinformatics by abhishek_tiwari on 2009-09-23 07:39:19 as along with 3 people q_w_e_r_t_y N-te_Jr zimbo1
	Data curation + process curation=data integration + science [My Copy] Brief Bioinform, Vol. 9, No. 6. (1 November 2008), pp. 506-517. by Carole Goble, Robert Stevens, Duncan Hull, Katy Wolstencroft, Rodrigo Lopez posted to curation by abhishek_tiwari on 2009-09-23 07:36:59 as along with 12 people and 1 group fgibson thegoose lmichan jfr sobolevnrm ml115 dullhunk nuin Cortel kshameer renatomilani druvus baker-group
	Provenance Management in Curated Databases [My Copy] (2006) by Peter Buneman, Adriane P. Chapman, James Cheney posted to provenance curation by abhishek_tiwari on 2009-09-23 07:17:00 as
	Standards for systems biology [My Copy] Nature Reviews Genetics, Vol. 7, No. 8. (01 August 2006), pp. 593-605. by Alvis Brazma, Maria Krestyaninova, Ugis Sarkans posted to systemsbiology standards curation by abhishek_tiwari on 2009-09-23 07:11:38 as along with 17 people and 3 groups mtaschuk irenas allysonlister ptrobajo hbricknell daforerog natstreet aalibes jfr rdiaz ronaldozhou mhucka dagmar peterli sgoetz giovenko fgibson dIEMoSIRIS compneur GelML
	Text mining for biology - the way forward: opinions from leading scientists [My Copy] Genome Biology, Vol. 9, No. Suppl 2. (2008), S7. by Russ Altman, Casey Bergman, Judith Blake, et al.Christian Blaschke, Aaron Cohen, Frank Gannon, Les Grivell, Udo Hahn, William Hersh, Lynette Hirschman, Lars Jensen, Martin Krallinger, Barend Mons, Sean O'Donoghue, Manuel Peitsch, Dietrich R. Schuhmann, Hagit Shatkay, Alfonso Valencia posted to text-mining curation by abhishek_tiwari on 2009-09-23 07:09:47 as along with 13 people and 1 group lmichan artaban421 daforerog kiekyon liblab henk-cul fisherp hpiwowar guhjy barriot imrchen fgibson dullhunk dbmi-nlp
	The public road to high-quality curated biological pathways [My Copy] Drug Discovery Today, Vol. 13, No. 19-20. (21 October 2008), pp. 856-862. by M. Adriaens, M. Jaillard, A. Waagmeester, S. Coort, A. Pico, C. Evelo posted to curation by abhishek_tiwari on 2009-09-23 07:04:49 as along with 7 people and 1 group andra nicklynch jfr ptrobajo thomaskelder AlexanderPico guhjy BiGCaT Bioinformatics
	WikiPathways: Pathway Editing for the People [My Copy] PLoS Biol, Vol. 6, No. 7. (22 July 2008), e184. by Alexander R. Pico, Thomas Kelder, Martijn P. van Iersel, Kristina Hanspers, Bruce R. Conklin, Chris Evelo posted to wiki curation by abhishek_tiwari on 2009-09-23 07:02:07 as along with 23 people and 2 groups irenas neilswainston sinhaa rolawren daforerog PaoloRomano thegoose2 fisherp fgibson guhjy psique ptrobajo cerami AlexanderPico thomaskelder iBartomeus renatomilani ajaymalik jarredmccaffrey laurianw dullhunk amarois tharris ConklinLab behavior_flexibility
	BOWiki: an ontology-based wiki for annotation of data and integration of knowledge in biology [My Copy] BMC Bioinformatics, Vol. 10, No. Suppl 5. (2009), S5. by Robert Hoehndorf, Joshua Bacher, Michael Backhaus, et al.Sergio Gregorio, Frank Loebe, Kay Prufer, Alexandr Uciteli, Johann Visagie, Heinrich Herre, Janet Kelso posted to wiki curation by abhishek_tiwari on 2009-09-23 07:01:58 as along with 10 people beanformer Fab2Study artaban421 guhjy pininforthefjords druvus operon mikel_egana dullhunk fgibson
	Calling on a million minds for community annotation in WikiProteins [My Copy] Genome Biology, Vol. 9, No. 5. (2008), R89. by Barend Mons, Michael Ashburner, Christine Chichester, et al.Erik van Mulligen, Marc Weeber, Johan den Dunnen, Gert J. van Ommen, Mark Musen, Matthew Cockerill, Henning Hermjakob, Albert Mons, Abel Packer, Roberto Pacheco, Suzanna Lewis, Alfred Berkeley, William Melton, Nickolas Barris, Jimmy Wales, Gerard Meijssen, Erik Moeller, Peter Roes, Katy Borner, Amos Bairoch posted to wiki curation by abhishek_tiwari on 2009-09-23 07:01:20 as along with 23 people and 1 group daforerog rolawren PaoloRomano thegoose2 fuwiki mchelen jfr yas AlexanderPico thomaskelder dullhunk tharris renatomilani neils fpattyn sjc Katje jamselem ChrisEvelo carlk guhjy xingxu rholz microbiology_nijmegen
	Bias, prevalence and kappa [My Copy] Journal of Clinical Epidemiology, Vol. 46, No. 5. (May 1993), pp. 423-429. by T. Byrt posted to curation by abhishek_tiwari on 2009-09-23 06:54:33 as
	Measuring agreement in medical informatics reliability studies [My Copy] Journal of Biomedical Informatics, Vol. 35, No. 2. (April 2002), pp. 99-110. by G. Hripcsak posted to curation by abhishek_tiwari on 2009-09-23 06:54:25 as
	Imitating Manual Curation of Text-Mined Facts in Biomedicine [My Copy] PLoS Comput Biol, Vol. 2, No. 9. (8 September 2006), e118. by Raul Rodriguez-Esteban, Ivan Iossifov, Andrey Rzhetsky posted to curation by abhishek_tiwari on 2009-09-23 06:49:38 as along with 4 people and 1 group Enro jfr yas dullhunk T_lab
	A Biocurator Perspective: Annotation at the Research Collaboratory for Structural Bioinformatics Protein Data Bank [My Copy] PLoS Comput Biol, Vol. 2, No. 10. (27 October 2006), e99. by Kyle Burkhardt, Bohdan Schneider, Jeramia Ory posted to curation by abhishek_tiwari on 2009-09-23 06:13:06 as along with 1 person hpiwowar
	The Biocurator: Connecting and Enhancing Scientific Data [My Copy] PLoS Comput Biol, Vol. 2, No. 10. (27 October 2006), e125. by Nima Salimi, Randi Vita posted to curation by abhishek_tiwari on 2009-09-23 06:12:58 as along with 2 people druvus hpiwowar
	Biocurators: Contributors to the World of Science [My Copy] PLoS Comput Biol, Vol. 2, No. 10. (27 October 2006), e142. by Philip E. Bourne, Johanna McEntyre posted to curation by abhishek_tiwari on 2009-09-23 06:12:50 as along with 4 people mcentyre operon hpiwowar dullhunk
	Big data: The future of biocuration [My Copy] Nature, Vol. 455, No. 7209. (03 September 2008), pp. 47-50. by Doug Howe, Maria Costanzo, Petra Fey, et al.Takashi Gojobori, Linda Hannick, Winston Hide, David P. Hill, Renate Kania, Mary Schaeffer, Susan St Pierre, Simon Twigger, Owen White, Seung Yon Rhee posted to curation by abhishek_tiwari on 2009-09-23 06:12:48 as along with 24 people and 1 group welliegirl mtaschuk applebyb shankark kshameer barriot eesruiz daforerog allysonlister guhjy jfr lindenb natstreet christoph_steinbeck thomaskelder druvus vobios hpiwowar amarois Zephyrus psique fgibson dullhunk neils Roswell Cancer Crosstalk
	FIGfams: yet another set of protein families. [My Copy] Nucleic acids research, Vol. 37, No. 20. (1 November 2009), pp. 6643-6654. by Folker Meyer, Ross Overbeek, Alex Rodriguez posted to protein family database curation classification by neils on 2009-09-21 00:36:03 as along with 5 people and 2 groups davidalee barriot kshameer timhubbard ppgardne Orengo Group Journal Picks Journal picks
	Semi-automated curation of protein subcellular localization: a text mining-based approach to Gene Ontology (GO) Cellular Component curation. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (21 July 2009), 228. by Kimberly Van Auken, Joshua Jaffery, Juancarlos Chan, Hans-Michael M. Müller, Paul W. Sternberg posted to genome curation automation by tharris to the group C. elegans / WormBase on 2009-09-14 17:22:05 as along with 3 people and 1 group kshameer grahamc jvb Journal picks
	IMG ER: a system for microbial genome annotation expert review and curation [My Copy] Bioinformatics, Vol. 25, No. 17. (1 September 2009), pp. 2271-2278. by Victor M. Markowitz, Konstantinos Mavromatis, Natalia N. Ivanova, I-Min A. Chen, Ken Chu, Nikos C. Kyrpides posted to curation annotation by Thaverkamp on 2009-08-25 15:16:29 as along with 4 people kiekyon neils natstreet druvus
	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 by abhishek_tiwari on 2009-08-12 02:36:35 as along with 7 people and 1 group daforerog Effie Keywan skap guhjy Cortel druvus NaCTeM
	@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 annotation biomedical component-based curation development entity extraction information literature mining named recognition retrieval semantic software text by zimbo1 on 2009-07-27 14:28:36 as along with 7 people and 1 group artaban421 kshameer liblab henk-cul guhjy dullhunk reyez dbmi-nlp
	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
	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
	DATABASE: A new forum for biological databases and curation [My Copy] Database, Vol. 2009, No. 0. (26 March 2009), pp. bap002-bap002. by David Landsman, Robert Gentleman, Janet Kelso, B. F. Francis Ouellette posted to curation data-curation by fgibson on 2009-06-08 15:19:50 as along with 2 people druvus dullhunk
	The NCI Thesaurus quality assurance life cycle. [My Copy] Journal of biomedical informatics, Vol. 42, No. 3. (June 2009), pp. 530-539. by S. de Coronado, L. W. Wright, G. Fragoso, et al.M. W. Haber, E. A. Hahn-Dantona, F. W. Hartel, S. L. Quan, T. Safran, N. Thomas, L. Whiteman posted to curation by fgibson on 2009-06-01 11:04:54 as along with 1 person dullhunk
	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. M. Bergman, Goran Nenadic posted to abner biomedical context-features crf crfplusplus curation dependencies genia-tagger information-extraction keywords lingpipe local-features long-distance machine-learning named-entities parsing pattern-learning phrasal-representation phrase-window phrases semantic-features semantic-roles sentence-classification shallow-parsing syntactic-features transcription-factor by henk-cul on 2009-04-23 14:46:51 as along with 3 people and 1 group druvus operon dullhunk dbmi-nlp
	Evaluation of text data mining for database curation: lessons learned from the KDD Challenge Cup. [My Copy] Bioinformatics, Vol. 19 Suppl 1 (2003) by A. S. Yeh, L. Hirschman, A. A. Morgan posted to curation evaluation flybase kdd text-mining by svozil to the group Bioinformatics on 2009-04-13 17:38:52 as along with 4 people and 2 groups irenas yas natsu blackbart dbk-lab T_lab
	Natural Language Processing in aid of FlyBase curators [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (2008), 193. by Nikiforos Karamanis, Ruth Seal, Ian Lewin, et al.Peter Mcquilton, Andreas Vlachos, Caroline Gasperin, Rachel Drysdale, Ted Briscoe posted to curation by Effie to the group NaCTeM on 2009-04-08 10:33:53 as along with 5 people and 1 group druvus cngl-sf1 hpiwowar vlachmore Gaetan dbmi-nlp
	Literature-curated protein interaction datasets [My Copy] Nature Methods, Vol. 6, No. 1. (30 December 2008), pp. 39-46. by Michael E. Cusick, Haiyuan Yu, Alex Smolyar, et al.Kavitha Venkatesan, Anne-Ruxandra Carvunis, Nicolas Simonis, Jean-François Rual, Heather Borick, Pascal Braun, Matija Dreze, Jean Vandenhaute, Mary Galli, Junshi Yazaki, David E. Hill, Joseph R. Ecker, Frederick P. Roth, Marc Vidal posted to curation dataset interaction literature protein-protein reliability statistics by neils on 2009-01-28 01:48:51 as along with 16 people aceol fgibson allysonlister carlk aramesh2 ocs reyez kshameer daforerog lesikv sjcockell dullhunk icq242500260 guhjy zwang hmk
	Reconstruction of biochemical networks in microorganisms. [My Copy] Nature reviews. Microbiology (31 December 2008) by Adam M M. Feist, Markus J J. Herrgård, Ines Thiele, Jennie L L. Reed, Bernhard Ø O. Palsson posted to biochemical biology curation metabolic networks pathways reconstruction review systems by behindtherabbit on 2009-01-16 23:08:24 as along with 10 people and 1 group coela roys rdiaz mycomodel tobitas pinney michaelbarton friveroll druvus dullhunk Bioinformatics
	Linked data and provenance in biological data webs. [My Copy] Briefings in bioinformatics, Vol. 10, No. 2. (1 March 2009), pp. 139-152. by Jun Zhao, Alistair Miles, Graham Klyne, David Shotton posted to annotation curation web_20 by druvus on 2008-12-08 11:19:40 as along with 8 people jfr fgibson artaban421 simonmcbride nuin dullhunk guhjy renatomilani
	Building biomedical web communities using a semantically aware content management system. [My Copy] Briefings in bioinformatics, Vol. 10, No. 2. (1 March 2009), pp. 129-138. by Sudeshna Das, Lisa Girard, Tom Green, Louis Weitzman, Alister Lewis-Bowen, Tim Clark posted to annotation curation semantic wiki by druvus on 2008-12-08 11:18:57 as along with 8 people jfr artaban421 bertelsen dbk guhjy fgibson allysonlister natstreet
	A pitfall of wiki solution for biological databases [My Copy] Brief Bioinform, Vol. 10, No. 3. (1 May 2009), pp. 295-296. by Masanori Arita posted to annotation curation wiki by druvus on 2008-12-08 11:18:11 as along with 5 people guhjy dullhunk nuin renatomilani sjung
	MPI-LIT: A literature-curated dataset of microbial binary protein-protein interactions. [My Copy] Bioinformatics (Oxford, England) (11 September 2008) by Seesandra V V. Rajagopala, Johannes Goll, Nd Deve D. Gowda, et al.Kumar C C. Sunil, Björn Titz, Arnab Mukherjee, Sharmilla S S. Mary, Naresh Raviswaran, Chetan S S. Poojari, Srinivas Ramachandra, Svetlana Shtivelband, Stephen M M. Blazie, Julia Hofmann, Peter Uetz posted to binary curation database interaction microbial protein-protein by neils on 2008-11-06 00:58:47 as along with 3 people barriot bicko higueruelo
	3did Update: domain-domain and peptide-mediated interactions of known 3D structure. [My Copy] Nucleic acids research, Vol. 37, No. Database issue. (25 January 2009), gkn690. by Amelie Stein, Alejandro Panjkovich, Patrick Aloy posted to curation database domain interaction peptide protein-protein structure by neils on 2008-10-30 23:14:11 as along with 4 people lptolik higueruelo zdai barriot
	Matching curated genome databases: a non trivial task [My Copy] BMC Genomics, Vol. 9 (24 October 2008), 501. by Stephane Descorps-Declere, Matthieu Barba, Bernard Labedan posted to curation database genomics integration by neils on 2008-10-25 02:41:44 as along with 4 people and 1 group guhjy lptolik cisevol druvus BergmanLab

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annotation	24
database	19
text-mining	15
all	8
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databases	8
bioinformatics	6
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recommendation	1
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seminal	1
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standards	1
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web_20	1

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